Tuesday 19 August - eventsInteractive, event management software ...

Table of Contents 

word of welcome by the congress chairs 3 

word of welcome by the president 4 

acknowledgements 5 

Committees 6 

Awards 8 

congress related meetings 9 

Poster Viewing 9 

corporate Workshops 10 

Monday 18 August 10 

Tuesday 19 August 12 

Wednesday 20 August 14 

Floor plans Congress Venue 19 

List of Exhibitors 21 

ORAL PRESENTATIONS 

Program Saturday 16 August 23 

Program at a glance 23 

HUPO Educational Day 24 

HUPO Initiatives Program 24 

Program Sunday 17 August 31 


HUPO Clinical Day 32 

HUPO Initiatives Program 33 

Program Monday 18 August 35 


Plenary speakers 38 

Full program details 42 

1

Table of Contents 

Program Tuesday 19 August 47 




Program Wednesday 20 August 59 




poster topics 66 

Poster listing 68 




Information for Oral and Poster Presenters 159 

Exhibition Information 160 

General Information 161 

Social Program 165 

Accompanying Persons Tour / excursion 166 

Exhibitor and sponsor listing 167 

Hotel Map 176 

Word of welcome by the 

congress chairs 

Dear Colleagues 

On behalf of the HUPO 2008 Amsterdam Congress Organizing Committee, HUPO and 

EuPA, we would like to extend our warm welcome to all of you attending the HUPO 

7th Annual World Congress held in the RAI Convention Centre in Amsterdam, The 

Netherlands. We like to thank you for your participation as presenter, exhibitor and/ 

or attendee. 

The theme of the meeting is “Proteome Biology”. With this title the Organizing 

Committee wants to indicate that in spite of the amazing complexity of the proteome, 

the field of proteomics has matured to a degree where significant progress in biology 

and medicine can be realized by applying the powerful proteomic technologies. This 

expectation is based on rapid progress in the development of a range of technologies 

that increasingly contribute to the editing of comprehensive maps of the various cells’ 

proteomes and move forward the boundaries of the “terra incognita”. The title of the 

meeting should also indicate the need for proteomics to progress beyond identifying the 

building blocks of the proteome towards understanding of how the complex biological 

functions of a cell are orchestrated via intricate networks of proteins interacting with 

themselves and other types of biomolecules. 

The meeting offers a full program with more than 140 lectures, 1200 posters, 

the Clinical Day and Educational sessions, the HUPO Initiatives progress meetings, 

corporate workshops, and a full exhibition with the latest technologies. 

Besides a challenging scientific program we also organised a very attractive social 

program! We hope that together with all of you we can create a scientifically creative and 

socially lively atmosphere at the meeting, whereby the presentations and discussions 

will contribute to further progress in the field of proteomics. 

Sincerely yours, 

Chairs of the HUPO 2008 meeting 

Albert Heck 

Utrecht University 

Netherlands Proteomics Centre 

Anne-Claude Gavin 

EMBL Heidelberg 

Ruedi Aebersold 

ETH Zurich and University of Zurich 

Institute for Systems Biology, Seattle 

2 3

Word of welcome by the 

President 

Dear Colleagues, 

On behalf of the Human Proteome Organisation I welcome you to the HUPO 7th Annual 

World Congress in Amsterdam. 

This year’s congress is entitled “Proteome Biology” and it emphasizes the need for 

proteomics to progress beyond identifying the building blocks of the proteome towards 

understanding of how the complex biological functions of a cell are orchestrated 

via intricate networks of proteins interacting with themselves and other types of 

biomolecules. 

Building on the success of HUPO’s past congresses, this collaborative effort between 

HUPO and EuPA to bring you once again “The can’t miss event of the year” in proteomics, 

has built a powerful scientific program led by visionaries in proteomics, and pioneers 

in education. 

Since proteomics depends heavily on the technologies that will drive this discipline 

forward, I am especially pleased and very thankful for the continued participation and 

the great support of all the congress exhibitors and sponsors. 

Thanks to all participants, many have traveled far away from home, the fascination 

with proteomics is represented by the great attendance of this congress, as we have 

experienced in past HUPO congresses that are attended by delegates from over 50 

different countries. I also extend my sincere greetings to all the funding agencies 

and their representatives who are helping shape and define proteomics, its goals and 

objectives and in particular are in full support of HUPO and its activities. 

Whether you are attending the congress to share information, to learn, to discover new 

technologies, to seek collaborations, to be involved, or to simply have the opportunity 

to network with scientists of similar interests, I trust that you will find that HUPO’s 

passion to the field of proteomics and its commitment to bring the best science to 

its congress will help you achieve your goal and will re-confirm that the HUPO Annual 

Congress is a must for you and your colleagues throughout the World. 

Enjoy your stay in the wonderful city of Amsterdam and hope to see you in Toronto 

next year for HUPO 8th Annual World Congress September 26-30, 2009. 

Acknowledgements 

MAIN sponsors 

Elite sponsor HUPO Scientific initiatives 

exhibitors 

Rolf Apweiler 

HUPO President 

The 7th HUPO Annual World Congress expresses its warm thanks to our Exhibitors 

for supporting the Congress. We encourage all Congress Delegates to visit the 

Exhibition and to learn more about the products and services. The Exhibition is located 

in Exhibition Hall 10. Please consult the Floor plan. 

The exhibitors contact details are listed on pages 167-174. 

4 5

Committees 

Congress Chairs 

Albert Heck 

The Netherlands Proteomics Centre 

Utrecht University, The Netherlands 


EMBL Heidelberg, Germany 


ETH Zurich 

University of Zurich, Switzerland 

Institute for Systems Biology, Seattle, USA 

Endorsed by 

Human Proteome Organisation 

www.hupo.org 


www.netherlandsproteomicscentre.nl 

Executive Organizing Committee 

Werner Most 


Silvie Hermsen 


Wehbeh Barghachie 

HUPO Director of Operations 

HUPO Executive Committee 

Rolf Apweiler 

President 

Catherine Fenselau 

Senior VP 

Young-Ki Paik 

VP 

John Bergeron 

Past President 

Richard Simpson 

Treasurer 

Peipei Ping 

Secretary General 

Mathias Uhlén 

Member at Large 

European Proteomics Association 

www.eupa.org 

Congress Secretariat 

International Conference Services BV 

P.O. Box 14645 

1001 LC Amsterdam 

The Netherlands 

Tel: +31 (0)20 679 32 18 

Fax: +31 (0)20 675 82 36 

Email: hupo2008@ics-online.nl 

www.hupo2008.com 

Session Chairs & Pre-Congress Organisers 

The Congress Organization wishes to thank all those who have been actively involved 

in the organization of the Scientific Program as pre-congress program organizer or 

session chair. Their involvement is highly appreciated and has greatly contributed to 

the quality of the final program. 

6 7

Awards 

HUPO Discovery in Proteomic Sciences award: 

Catherine Costello 

HUPO Distinguished Service Award: 

Richard Simpson 

HUPO Distinguished Achievement Award in Proteomic Sciences: 

This Award is Sponsored by Journal of Proteome Research & ACS 

Denis Hochstrasser and Matthias Mann 

HUPO Young Investigator Awards: 

Jesper Olsen 

Shabaz Mohammed 

Adriana Paes Leme 

EuPA Senior Scientist Award in Proteomic Sciences: 

Stellan Hjerten 

EuPA Ph.D. Award Nominees: 

Bernd Bodenmiller 

Simone Lemeer 

Anissa Sidibe 

Tine E. Thingholm 

Leonie Waanders 

We thank the 2008 sponsors of student travel awards: 

Genome Canada Travel Awards to Canadian Students 

Hoffmann – La Roche AG Travel Awards 

Congress Related Meetings 

(on invitation only) 

HUPO Industry Advisory Board Meeting 

Sunday 17 August 

Room L - 09.00 - 12.00 hrs 

Education Committee Meeting 


Room P - 09.00 - 11.00 hrs 

HUPO Council Meeting 


Room CD - 13.30 - 18.00 hrs 

Press Conference 

Monday 18 August 

Room H - 12.30 - 14.00 hrs 

Regional HUPO Presidents’ Breakfast Meeting 

Tuesday 19 August 

Room P - 07.00 - 07.55 hrs 

Editorial Board meeting “Journal of Proteomics” (Elsevier) 


Café Amsterdam - 12.30 - 14.00 hrs 

US HUPO Board Meeting 

Wednesday 20 August 

Room P - 12.00 - 13.30 hrs 

Poster Viewing 

Posters will be on display in the exhibition and poster area (Hall 10 of the RAI Convention 

Centre). Each day posters can be viewed during meeting breaks which are scheduled 

daily on the following hours: 

Morning break 

Lunch break 

Afternoon break 

09.30 - 11.00 hrs 

12.30 - 14.00 hrs 

15.30 - 16.00 hrs 

We would like to ask all poster presenters to be present at their poster at least 

during the morning and afternoon break. All posters will be on display for one day only, 

either on Monday, Tuesday or Wednesday. Posters will be numbered as P-MON-#, 

P-TUE-# and P-WED-# respectively (see pages 68 – 157). 

8 9

Corporate Workshops 

QIAGEN 

07.00 - 07.50 hrs, room CD 

Tickets to be collected at booth 71 

Protein and peptide analysis from clinical specimens 

Kerstin Steinert, Director R & D, QIAGEN GmbH, Hilden, Germany 

Udo Roth, R & D Scientist, QIAGEN GmbH, Hilden, Germany 

Direct analysis of peptides in body fluids 

Hepcidin is the key regulator of iron metabolism and its concentration in urine provides 

diagnostic value in diseases. We present a new technique overcoming current hepcidin 

quantification issues by MALDI-MS in combination with sample preparation on-chip. 

Hepcidin detected directly in crude urine enables the establishment of HTP quantification 

workflows of this peptide. 

Standardized sample preparation from different tissues 

Huge numbers of Formalin-Fixed Paraffin-Embedded (FFPE) are prepared per year. 

Previously, due to the crosslinks formed during the fixation process, their analysis 

was limited to histochemical techniques. Here we present a method enabling efficient 

extraction of full-length proteins suitable for analysis of specific protein targets or 

proteomic approaches. 

PROMEGA CORPORATION 

07.00 - 07.50 hrs, room EF 


breakfast workshops 

ProteasMAX Surfactant 

Improve Overall Confidence in Protein Identification 

Incomplete solubilization, digestion and poor peptide recovery are limitations in protein 

sample preparation for MS analysis. ProteasMAX Surfactant reduces these 

limitations while avoiding negative effects observed with common solubilizing agents. 

In-gel digestion showed up to 1.8-fold increase in protein coverage and up to 6.9-fold 

increase in MASCOT score. 

Monday, 18 August 

AGILENT TECHNOLOGIES 

12.30 - 14.00 hrs, room B 


Agilent’s HPLC-Chip/LC-MS: 

A key enabling technology for integrated proteomics workflows 

HPLC-Chip/LC-MS sits at the center of an integrated proteomics workflow from 

sample preparation to data analysis, encompassing identification and characterization, 

biomarker discovery and quantitation. We discuss the new HPLC-Chip 6530 Accurate 

Mass Q-TOF for more confident protein identification and the HPLC-Chip / 6460 Triple 

Quadrupole for sensitive targeted peptide quantitation. Leading scientists will present 

applications using the innovative HPLC-Chip/MS technology. 

APPLIED BIOSYSTEMS / 

MDS ANALYTICAL TECHNOLOGIES 

12.30 - 14.00 hrs, room CD 


Increasing Throughput and Quality of Results in Protein Biomarker Discovery 

and Verification 

Increasing throughput can often mean compromising the quality of data and results. 

Innovations from Applied Biosystems/MDS Analytical Technologies break this paradigm 

and actually increase the quality of results along with increasing sample throughput. 

This workshop will discuss how advances in MS systems, software, reagents and 

workflows enable new levels of protein biomarker productivity. 

BRUKER DALTONICS 

12.30 - 14.00 hrs, room EF 


lunch workshops 

(R)evolution in Label-free Proteomics and Data Evaluation 

A prestigious researchers’ panel will present talks detailing a series of innovative applications 

utilizing the maXis for protein identification and quantitation with accurate 

mass, ultra high resolution across a broad mass range, high sensitivity, all at the high 

speed needed to take full advantage of ultra-high performance liquid chromatography. 

10 11


ROSETTA BIOSOFTWARE 

07.00 - 07.50 hrs, room B 


Real-World Proteomics: 

A Spectrum of Workflows in the Rosetta Elucidator System 

Presented by Tim Bonnert, Ph.D. Rosetta Biosoftware & Hendrik Neubert, Ph.D. 

Pfizer Global Research and Development 

The diversity of scientific questions that are being addressed by LC/MS proteomics 

necessitates a varied approach to experimental design and execution. Data could be 

generated on multiple high- or low-resolution instruments as label-free or labelled (e.g. 

SILAC, or ICAT) samples using 1D- or multidimensional separation in data dependent, 

data independent (MS(E)) or targeted MS/MS modes. Such diverse methods of 

data generation may also benefit from multiple database search engines and diverse 

statistical, analytical, and visualisation methods. 

The Rosetta Elucidator® system (www.rosettabio.com/elucidator) provides a 

comprehensive solution for the rapid and efficient analysis of any number of samples 

collected by any of these workflows. This seminar will showcase a number of different 

LC/MS workflows and will also discuss how LC/MALDI offers several benefits over the 

more conventional LC/ESI methodology (see Neubert et al. J Proteome Res. 2008, 7, 

pp2270-9) 

GE HEALTHCARE EUROPE 

07.00 - 07.50 hrs, room CD 



Quantitative solutions in proteomics: 

A novel use of Ettan DIGE fluorescent cye dyes and 2D LC 

This GE Healthcare seminar will introduce an exciting and new technique, combining a 

novel dual labelling strategy with 2D LC. Samples are labeled at the protein level with 

both Ettan DIGE fluorescent cye dyes and stable isotope labels (ICPL), prior to 2D LC. 

Quantitation is performed at both the protein and peptide level. This method addresses 

important issues such as loading capacity, dynamic range, sample complexity and 

relating peptide signals to parent protein origin. 

Tuesday, 19 August 

THERMO SCIENTIFIC 

12.30 - 14.00 hrs, room B 


Thermo Fisher Scientific cordially invites you to attend an educational workshop on the 

latest integrated solutions for protein characterization and quantitation featuring the 

following two talks: 

Driving Biological Discovery using the LTQ Orbitrap 

John Yates, Ph.D. - The Scripps Research Institute - Department of Cell Biology 

First Impressions of the MALDI LTQ Orbitrap 

Michael Karas, Ph.D. 

Institute for Pharmaceutical Chemistry - Goethe University, Frankfurt am Main 

DIONEX CORPORATION 

12.30 - 14.00 hrs, room CD 


Approaches for High Resolution 2-D LC/MS in Proteomics 

Multidimensional liquid chromatography provides high resolution identification of 

proteins by MS/MS; including scarce and difficult to separate proteins, and is gaining 

popularity over traditional 2-D electrophoresis. Dionex recently introduced a new 

proteomics MDLC platform. This workshop will review automation and optimization of 

MDLC methods for top-down and bottom-up protein identification. 

BRUKER DALTONICS 

12.30 - 14.00 hrs, room EF 


(R)evolution in Top Down Analysis and PTM Discovery 

Presented will be an overview of recent proteomics application: 

MALDI-TDS for novel Top-Down Sequencing providing 100% protein sequence 

coverage incl. C- / N- terminal assignments, 

ETD/PTR for PTM and intact protein analysis in the HCTultra ion trap 

high performance MALDI tissue imaging using the SmartBeam proprietary laser 

PROMEGA CORPORATION 

12.30 - 14.00 hrs, room P 



HaloLink Protein Arrays for Functional Proteomics 

Promega’s HaloLink protein arrays allow rapid creation of arrays on demand. HaloTag® 

fusion bait proteins expressed in vitro or in vivo are covalently bound to a glass slide 

through our proprietary HaloTag® linkage. Bait proteins can be captured directly from 

lysate or reaction mix without prior purification, leading to rapid, parallel and multiplex 

analysis of protein interactions. 

12 13


ROSETTA BIOSOFTWARE 

07.00 - 07.50 hrs, room B 


The Analysis of Diagnostic Markers For Lysosomal Storage Disorders: 

A Case Study in Label-Free Differential Analysis in the Rosetta Elucidator System 

Presented by Cindy Chepanoske, Ph.D. Rosetta Biosoftware 

The Rosetta Elucidator® system (www.rosettabio.com/elucidator) provides a 

comprehensive solution for the rapid and efficient analysis of LC/MS data from multiple 

instruments and workflows. Multi-instrument support by the Elucidator system has 

been further expanded by the integration of Waters® Ultra Performance LC/MS(E)® 

proteomics discovery data and results from the Identity(E) search engine, so that data 

produced on Waters’ instrumentation can be analyzed using the Elucidator software. 

Gaucher disease is the most common lysosomal storage disease and there is great 

clinical interest to identify and quantify additional biomarkers for this disease. A labelfree 

LC/MS(E) serum profiling analysis was conducted to quantitatively characterize 

candidate biomarkers. The workflow used for biomarker discovery in the Elucidator 

system will be presented, followed by a live demonstration of the software. 

GE HEALTHCARE EUROPE 

07.00 - 07.50 hrs, room CD 


Biacore analysis – exploring the real-time world of protein interactions 

Speaker: Erik Verschuuren 


Biacore systems for label-free interaction analysis provide information on binding 

specificities, affinities and kinetics, as well as interactant concentrations. This 

presentation will exemplify how Biacore systems are used to validate, quantify, 

and characterize protein interactions to unravel the mechanisms behind cellular 

processes. 

Wednesday, 20 August 

THERMO SCIENTIFIC 

07.00 - 07.50 hrs, room EF 


Thermo Fisher Scientific cordially invites you to attend an educational workshop on the 

latest integrated solutions for protein characterization and quantitation featuring the 

following two talks: 

Approaches to global phosphoproteomic analysis 

Nick Morrice, Ph.D. 

MRC Protein Phosphorylation Unit 

University of Dundee 

Absolute quantification of targeted endogenous salivary peptides using heavy 

isotope-labeled synthetic internal standards and high resolution selected reaction 

monitoring mass spectrometry 

Markus Hardt, Ph.D. 

University of California, San Francisco 

Department of Cell and Tissue Biology 

WATERS 

12.30 - 14.00 hrs, room B 


The next generation of proteomics technology; 

Combining novel nanoscale separations with high-performance mass spectrometry 

This seminar will focus on new separation and mass spectrometry techniques that can 

be applied to proteomics research. We will detail the development and application of 

the TRIZAIC® nanoACQUITY UPLC proteomics system, and the Xevo TQ MS, a novel 

tandem quadrupole LC-MRM system. 

BIO-RAD LABORATORIES 

12.30 - 14.00 hrs, room CD 


Technologies for Biomarker Discovery 


With the right technologies, the challenges of Biomarker discovery can be minimized. 

ProteoMiner technology reduces sample complexity, allowing you to dig deeper in the 

proteome. 2-DGE and SELDI enable the detection of changes in protein levels and 

potential biomarker candidates. Data generated with these technologies demonstrates 

their power for Biomarker discovery. 

14 15

INVITROGEN 

12.30 - 14.00 hrs, room EF 


Discovery of SLE Autoantibody Biomarkers using Protein Microarray Technology & 

Protein Sample Purification and Fractionation using Dynabeads Magnetic beads 

The diagnostic value of serum autoantibodies for many diseases, including cancer, 

diabetes, and autoimmune disorders is well established. Realizing the promise of 

autoantibody panels in diagnosis, prognosis and treatment response predictions will 

require the use of multiplex tools that enable investigators to query the autoantibody 

profile on a proteomic scale. Identifying the antigens that elicit an autoimmune 

response can yield panels of biomarkers that can be used as classifiers for particular 

diseases, disease stages, or as predictors of patient outcomes. The present study 

utilized high content functional protein microarrays comprised of >8,000 purified fulllength 

human proteins, including a panel of >20 annotated autoantigens. These protein 

microarrays were probed with serum from Systemic Lupus Erythematosus (SLE) 

patients and compared with serum from disease-free donors. Patient serum from 

other autoimmune disorders (RA, vasculitis) were included to identify SLE-specific 

markers rather than autoimmune-specific. Statistical algorithms were developed to 

analyze data from individual microarrays and to compare data between populations. This 

line of investigation identified a panel of 18 novel biomarkers which could differentiate 

SLE patients from healthy individuals more accurately than a panel of 10 established 

SLE biomarkers. Validation studies utilizing the Luminex platform were used to confirm 

the results obtained via the ProtoArray. Taken together, our results suggest that 

functional protein microarray technology is a powerful new tool for the rapid discovery 

of autoantigen biomarkers. 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

16 17

. 

1 

1 2 1 

3 2 2 

4 3 3 

5 4 4 

6 5 5 

7 6 

8 7 

8 

9 

9 

WHO & WHERE? 

Node 4 Associate 

F.J. Blanco - H J.Canalejo 

Node 4 

X. Bustelo - CIC 

* 

Node 2 

J. Mato - CIC-bioGUNE 

F. Corrales - CIMA 

JM. Arizmendi - UPV 

Node 3 

J. Abián - LP-CSIC/UAB 

J. Arribas - HUVH 

S. Martínez - PCB 

D. Andreu - UPF 

FX. Avilés - IBB UAB 

O. Bachs - UB 

Central Structure 

JP. Albar - CNB 

JM. Mato - CIC-bioGUNE 

J. Abian - LP-CSIC/UAB 

* 

Overall Floor Plan Congress Venue 

Node 1 

JP. Albar - CNB 

C. Gil - PCM-UCM 

A. Marina - CBMSO 

I. Casal - CNIO 

J.M. Carazo - INB-CNB 

- 


P. Carrasco - UV 

Node 5 

M. S. del Pino - CIPF 

R. Bru - UA 

Room B 

HOW? 


V. Ceña - UCLM 

Node 6 

JA. Bárcena - UCO 

Current Working Groups: 

WG 1. Technological development and 

standardization of protocols. 

WG 2. Samples collection and handling. 

WG 3. Bioinformatics support. 

WG 4. Functional organization of proteomic 

services and coordination of price scales. 

WG 5. Training, education and diffusion. 

WG 6. Internationalization and coordination 

with other proteomic consortia 

and platforms. 

WG 7. Biomedical Proteomics. 

XXXX 

Auditorium 

Room Auditorium 

Room C-D 

Room E-F 

www.proteored.org 

WHY? 

ProteoRed purpose is the coordination and integration of activities of the 

proteomics facilities to guarantee the access of the scientific comunity to 

the state-of-the-art proteomics technology. 

WHEN? 

ProteoRed is continously improving standards on its proteomics services, 

by incorporating HUPO-PSI guidelines and formats, since June 2005, setting 

a quality label for their users. 

WHAT? 

- Protein and Peptide Molecular Weight Analysis 

- Protein Identification 

- Characterization and Protein Modifications 

- Differential Proteomics 

- Sequencing 

- Peptide Synthesis 

- 2D electrophoresis 

- Bioinformatics Tools 

TOOLS 

MIAPEs Web templates: 

GE, GI, MS, MSI 

PRIDE schema tools: 

PIKE, Virtual 2D, PRIDE 

viewer, GARBAN, … 

spanish institute for proteomics . 

Room A 

Room Auditorium 

Room Forum Room L 

Forum 

i 

E E N N T E T R N R A T A N R N C A C E N E C E T O T O S T S E O E S S E I S O I S O N I N O R N O R O O M MS O S MS 

HALL 10 

10 

11 

12 

12 11 

posters posters 061 - - 061 116 

- 116 

Speaker Ready Room 

46 

46 47 

47 

26 26 26 27 27 27 

EE 

40 

EE 

40 

45 

45 

25 25 25 22 22 22 

44 

44 

42 

42 42 

23 

23 23 

51 

51 

37 

51 

37 37 

30 

30 30 

posters 001 

posters posters 001 

- 060 

- 001 060 - 060 

34 31 

34 34 31 31 

32 

32 32 

Waters 

52 Waters Waters 

52 52 I n t e r n e t 

I n t e r n e t 

C orner 

orner C orner 

Room N-N1-O1-O 

Room P 

C a t e r i n g a r e a 

a C t a e t r e i r n i g n g a r a e r a e a 

60 

60 60 

63 

63 63 61 

61 61 

posters 305 - 374 

posters 167 - 216 

posters posters 305 - 305 374 - 374 


70 

90 92 

70 70 

90 90 92 92 

76 71 

76 76 71 71 

posters 235 - 304 

75 72 80 82 83 

posters posters 235 - 235 304 - 304 100 101 102 103 

75 75 72 72 80 80 82 82 83 83 

100 100 101 101 102 102 103 103 

74 73 87 86 85 84 

107 106 105 104 

74 74 73 73 87 87 86 86 85 85 84 84 

107 107 106 106 105 105 104 104 

posters posters 117 117 - 166 - 166 

posters 117 - 166 

108 

108 108 

110 

110 110 

111 

111 111 

66 

66 66 

68 

68 68 

78 

78 78 

79 

79 79 

posters 217 - 234 

119 118 

EE EE EE 


119 119 118 118 115 115 

EE EE EE EE EE EE 

EXHIBITOR SERVICES 


18 19

Floor Plan Exhibition Area 

List of Exhibitors 

Booth 

No. 

Organisation 

Booth 

No. 

Organisation 

EE 

EE 

HALL 10 

10 

51 

51 

52 

52 

66 

66 

68 

68 

78 

78 

79 

79 

12 

12 

11 119 

9 

Waters 

I n I t n e t r e n r e n t 

e t 

C orner 

C orner 

60 

60 

63 

63 

61 

61 

70 

70 

posters 117 - 166 

posters 117 - 166 

8 

8 

7 

34 

34 

7 

6 

6 

5 

posters posters 061 061 - 116 

- 116 

46 

46 

47 

47 

40 

40 

45 

45 

44 

44 

42 

42 

37 

37 

30 

30 

31 

31 

32 

32 


- 216 

76 

76 

71 

71 

75 

75 

72 72 80 

80 

82 

82 

83 

83 

74 74 73 

73 

87 

87 

86 86 85 

85 

84 

84 

EE 

EE 

EE 

EE 

EE 

EE 

5 

4 

4 

3 

3 

2 

2 

1 

1 

26 

26 

27 

27 

25 

25 

22 

22 

23 

23 


- 060 

E N E T N R T A R N A C N E 

C E 

T O T O S E S S E S I S O I N O R N O R R O MS O M O MSS 

M S 

C C a t a e t r e i r n i g n g a r a e r a 

e a 


- 374 

108 

108 

90 

90 

92 

92 

110 

110 

111 

111 


- 304 

100 

100 

101 

101 

102 

102 

103 

103 

107 

107 

106 106 105 

105 

104 

104 


- 234 

119 

119 

118 

118 

115 115 


001 GL Sciences Inc. 

002 INTAVIS Bioanalytical Instruments 

003 JPT Peptide Technologies GmbH 

004 Proxeon 

005 Silantes GmbH 

006 

UVic Genome BC Proteomics 

Centre 

007 UVP 

008 

Australian Proteome Analysis 

Facility Ltd 

009 

Netherlands Genomics Initiative / 


011 Pall Life Sciences 

012 GenWay Biotech, Inc. 

022 Bruker Daltonics 

023 Digilab Genomic Solutions (UK) Ltd 

025 Atlas Antibodies 

026 Sigma-Aldrich 

027 American Chemical Society 

030 Miltenyi Biotec 

031 Peaks 

032 Agilent Technologies 

034 Thermo Scientific 

037 Nonlinear Dynamics 

040 Syngene 

042 Promega Corporation 

044 Caprotec Bioanalytics GmbH 

045 PSS Europe GmbH 

046 Epitomics, Inc. 

047 

EMBL-European Bioinformatics 

Institute 

051 Nanoxis AB 

052 GE Healthcare Europe GmbH 

060 Waters 

061 Dionex Corporation 

063 

Applied Biosystems / MDS 

Analytical Technologies 

066 R & D Systems Europe 

068 SERVA Electrophoresis GmbH 

070 Abfrontier Co. Ltd 

071 Qiagen 

072 Denator AB 

073 Dualsystems Biotech AG 

074 

EuPA / The Swedish Academy of 

Pharmaceutical Sciences 

075 HUPO 2009 

076 HUPO HQ 

078 Elsevier 

079 Science International / AAAS 

080 BD Diagnostics 

082 BD Biosciences 

083 CovalX AG 

084 Eksigent Technologies 

085 Rosetta Biosoftware 

086 Protein Forest Inc 

087 Ludesi AB 

090 Bio-Rad Laboratories 

092 Shimadzu 

100 GenoLogics 

101 Decodon 

102 Hoefer, Inc 

103 Genebio Geneva Bioinformatics 

104 Axela Inc. 

105 IOS Press 

107 

Merck / EMD, 

Novagen & Calbiochem 

108 Invitrogen / Dynal 

110 Labcyte Inc. 

111 RSC Publishing 

115 Aushon BioSystems 

118 Pressure BioSciences, Inc. 

119 Wiley-VCH Verlag 

20 21

ty Number 207890 

ISSN 1742-206X 

11/07/2007 09:34:16 

es 

tions by 

cement 

eir 

the 

Paris, 

Image reproduced by permission of A. Manz, Lab Chip 2006, 6(4) 

t more 

erprize 

Research at the interface between 

chemistry, the –omic sciences and 

systems biology 

14020750 

Volume 3 | Number 8 | 2007 Molecular BioSystems Pages 509–568 

Molecular 

BioSystems 

www.molecularbiosystems.org Volume 3 | Number 8 | August 2007 | Pages 509–568 

HIGHLIGHT 

Diane M. Ramos and Antónia Monteiro 

Transgenic approaches to study 

wing color pattern development in 

Lepidoptera 

METHOD 

K. Imai, Y. Ogai, D. Nishizawa, S. Kasai, 

K. Ikeda and H. Koga, 

A novel SNP detection technique 

utilizing a multiple primer extension 

(MPEX) on a phospholipid polymercoated 

surface 

Indexed in 

MEDLINE! 

1742-206X(2007)3:8;1-8 

• Impact factor 4.121* 

• Fast publication times (average 80 days from receipt) 

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definitions and related articles 

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*2007 Thomson Scientific (ISI) Journal Citation Reports ® 

www.molecularbiosystems.org 

Registered Charity Number 207890 

08080727a 

Saturday 16 August 2008 

location 

Exhibition hall 10 Room Forum Room A Room B Room CD Room EF 

time 

whole day Exhibition build-up Educational Day 

HUPO 

Human Proteome 

Project I 

09.30 - 12.30 

Educational Day 

Session I 

09.30 - 12.00 

HUPO 

Human Antibody Initiative 

HUPO 

Liver Proteome 

Project 

HUPO 

Brain Proteome Project 

HUPO 

Proteome Biology of Stem 

Cells Initiative 

14.00 - 17.30 

Educational Day 

Session II 

14.30 - 17.00 

Model Organisms 

Workshop 

HUPO Human 

Kidney and Urine 

Proteome Project 

HUPO 

Human Proteome 

Project II 

18.30 - 21.00 

Legend: = Social event = Plenary session = Corporate Workshop = Symposium 

= Initiative = Other meeting 

22 23

Saturday 16 August 

hupo educational day 

09.30 - 12.30 Educational Day Session i room: Forum 

Welcome Address 

Angelika Görg and Ole Jensen 

Gel-based Proteomics 

Angelika Görg 

Sample Preparation and Protein Detection Thierry Rabilloud 

Shot gun Proteomics 

Mike MacCoss 

Antibodies 


14.00 - 17.30 Educational Day Session II 

Welcome Address 

Angelika Görg and Ole Jensen 

hupo initiatives program 

HUPO Human Proteome Project I Workshop 

room: A 

09.30 - 12.00 

Chairs: John Bergeron and Mathias Uhlén 

Introduction 

John Bergeron 

The Human Proteome; where are we now Matthias Mann 

One gene - 


one (or sufficient) proteotypic peptide(s) 

One gene – one antibody 


Speed and Dynamic Range; 

John Yates 

bottle necks in mass spectrometry 

Post-translational modifications and Albert Heck 

protein processing 

and Alan Sawyer, Fredrick Ponten, Jack Greenblatt, Rolf Apweiler, Marty McIntosh, 

Tommy Nilsson, Young-Ki Paik, Giulio Superti-Furga and Anne-Claude Gavin. 

Mass Spectrometry 

Mass Spectrometry based Quantification 

Post-translational Modifications 

Roman Zubarev 


Ole Jensen 

Mass Spectrometry related Bioinformatics 

Session I; 

Comparison of search engines 

Bas van Breukelen 

Session II; 

Pierre-Alain Binz 

Standards for data-sharing and available resources and databases for metaannotation 

of proteomics 

24 25

HUPO Proteome Biology of Stem Cells Initiative Workshop 

14.30 - 17.00 

Chairs: Jeroen Krijgsveld and Albert Heck 

room: A 

14.30 The HUPO PBSCI: Where are we now 

Jeroen Krijgsveld, Utrecht University, The Netherlands 

14.40 Quantitative proteomics of embryonic stem cell differentiation 

Tony Whetton, University of Manchester, Manchester, UK 

14.55 Phosphorylation dynamics during differentiation of embryonic stem cells 

Javier Muñoz, Utrecht University, The Netherlands 

15.10 In-depth quantitation of the mouse ES cell proteome 

15.25 

Nina Hubner, Max Planck Institute for Biochemistry, Martinsried, Germany 

Quantification of early signaling events in embryonic stem cell self-renewal 

Jarrod Marto, Harvard Medical School, Boston, USA 

15.40 Comparative proteome an transcriptome analysis of human, mouse 

and monkey ESCs during differentiation 

Ghasem Hosseini Salekdeh, Royan Institute, Tehran, Iran 

15.55 

16.15 

Break 

Discussion 

HUPO Brain Proteome Project Workshop 

14.30 - 17.00 

Chairs: Helmut E. Meyer, Michael Hamacher & Young Mok Park 

room: B 

In this workshop, colleagues will present new, innovative analysis strategies for study 

pathomechanisms of different neurodegenerative diseases. 

14.30 Welcome address & Update: Barbados Wish List 

Helmut E. Meyer & Michael Hamacher (MPC, GER) 

14.50 Proteinbiochips 

Helmut E. Meyer (MPC, GER) 

15.30 The balancer concept 

Joachim Klose (Charité, GER) 

16.00 Neuropathology 

Lea Grinberg (Sao Paolo, BR) 

16.30 Oral from Poster Session 

N.N. (N.N., N.N) 

16.50 General Discussion & End of Session 

Young Mok Park (KBSI, KOR) & All 

HUPO Liver Proteome Project Workshop 

room: CD 

14.30 - 17.00 

Chair: Laura Beretta 

Co-chairs and session leaders: John Bergeron, Young-Ki Paik, Chantal Housset, 

Xiaohong Qian 

Participants: Rolf Apweiler, Pengyuan Yang, Siqi Liu, Gil Omenn, Eric Deutsch, 

Lennart Martens, Paul Boersema, Ying Jiang 

Introduction 

The Human Proteome Project: The Liver Perspective 

mass spectrometry - based coverage / where are we now 

antibody - based coverage / resources, integration, complementarity 

localization, abundance and liver tissue specificity 

pilot projects 

towards a mouse proteome project 

Comparative Analysis Of The Liver And Plasma Proteomes 

proteins and glycoproteins 

peptides 

abundance 

Opportunities For The Study Of Liver Diseases Within Hlpp 

data repository 

liver disease biomarkers: a focus on liver cancer 

biobanks and mouse models 

5th HUPO Human Antibody Initiative Workshop R 

14.30 - 17.00 

Chair: Mathias Uhlén 

Welcome and introduction 

Snyder, Hudson, Uhlén 

Short update on the Human Protein Atlas Ponten, UU, Sweden 

Update on antibodies 

A. Mono-specific antibodies Hober, KTH, Sweden 

B. Monoclonal antibodies Sawyer, Monash, Australia 

Update on recombinant affinity reagents 

A. Introduction Hudson, Australia 

B. New strategies for selection Weiner, USA 

C. Array strategies for selection Borrebeack, Sweden 

Pilot projects for antibody generation 

A. Cancer related proteins Rodriguez, NCI, US 

B. SH2 domains Graslund, KI, Sweden 

C. Chromosome 21 genes Berglund, KTH, Sweden 

D. ProteomeBinder Taussig, Cambridge, England 

Antibodypedia - portal for validated antibodies 

A. Update of portal Bjorling, KTH, Sweden 

B. Standards for affinity reagents Hermjacob, EBI, England 

Discussions 

Snyder, Hudson and Uhlén 

A. Pilot projects and antibodypedia 

B. How to relate to a Human Proteome Project 

room: EF 

26 27

HUPO Human Proteome Project II Workshop 

18.30 - 21.00 

Chair: Rolf Apweiler 

Invitees: Funding agencies and Proteomics leaders 

Program to be announced 

HUPO Human Kidney and Urine Proteome Project 

18.30 - 21.00 

Session chair: Tadashi Yamamoto, Niigata University, Japan 

18.30 - 18.35 

Introduction 

Tadashi Yamamoto 

Chair of HKUPP, Niigata University, Japan 

room: A 

room: B 

18.35 - 20.20 Session 1 

Standards and Guidelines for Proteome Analysis of Non-Proteinuric Urine 

Co-chairs: Tadashi Yamamoto (Niigata University, Japan) and Antonia Vlahou 

(Biomedical Research Foundation of the Academy of Athens, Greece) 

18.35 - 19.20 Summary of previous studies and discussion 

Visith Thongboonkerd 

Medical Molecular Biology Unit, Office of Research and Development, Faculty of Medicine, 

Siriraj Hospital, Mahidol University, Bangkok, Thailand 

19.20 - 19.32 Different urine desalting methods and their impact on 2D 

gel electrophoresis quality and protein identification 

Hassan Dihazi 

Clinical Proteomics Laboratories, Nephrology and Rheumatology, Georg-August University 

Goettingen, Goettingen, Germany 

19.32 - 19.44 CE-MS based human urinary proteome database for 

biomarker discovery and disease diagnosis 

Petra Zürbig 1 , David M. Good 2 , Eric Schiffer 1 , Joshua J. Coon 2, 3 

and Harald Mischak 1 

1 

Mosaiques Diagnostics and Therapeutics AG, Hannover, Germany 

2 

Department of Chemistry 

3 

Department of Biochemistry, University of Wisconsin University of Wisconsin-Madison, 

Madison, WI, USA, 

19.44 - 19.56 Urinary proteomic biomarkers in coronary artery disease 

Eric Schiffer 1 , Lukas U. Zimmerli 2 , Janet K. Snell-Bergeon 3 , 

David M. Maahs 3 , Harald Mischak 1 , and Anna F. Dominiczak 4 

1 

Mosaiques Diagnostics and Therapeutics AG, Hannover, Germany 

2 

Division of Internal Medicine, University Hospital Zurich, Zurich, Switzerland 

3 

Barbara Davis Center for Childhood Diabetes, Aurora, USA 

4 

BHF Glasgow Cardiovascular Research Centre, University of Glasgow, Glasgow, UK. 

19.56 - 20.08 A novel, non-invasive multiplex-assay to diagnose acute 

rejection in the urine of renal transplant recipients. 

Diana Breuer 1 . Gerald Schlaf 1 , Wolfgang Altermann 1 , Barbara 

Selinger 1 , Paolo Fornara 2 and Amir Hamza 2 

1 Martin-Luther-University Halle –Wittenberg, Medical School, HLS-Laboratory (GHATT) 

2 

Department or Urology and Kidney Transplant Center 

20.08 - 20.20 Influence of acid mucopolysaccharide in proteome analysis 

of non-protein urine 

Zhinguo Li, Tingting Zhao, Liping Yang, Jingzhen Guo, and Ping Li 

Department of Pharmacology, Institute of Clinical Medical Science, China-Japan Friendship 

Hospital, Beijing, P.R. China 

20.20 - 20.40 Session 2 

New Activity of HKUPP 

Chair: Yutaka Yoshida (Niigata University, Japan) 

20.20 - 20.30 News from HUPO 


Department of Structural Pathology, Institute of Nephrology, Graduate School of Medical 

and Dental Sciences, Niigata University, Niigata, Japan 

20.30 - 20.40 News from EuroKUP 

Antonia Vlahou 

Biomedical Research Foundation of the Academy of Athens, Athens, Greece 

20.40 - 21.00 Session 3 

Free Discussion 

Chair: Visith Thongboonkerd (Mahidol University, Bangkok, Thailand) 

Model Organisms Workshop 

room: CD 

18.30 - 21.00 

Chairs: Michael Hengartner, Ruedi Aebersold, Sabine Schrimpf 

Invitees: Matthias Mann, Steven Gygi, Albert Heck, Young-Ki Paik, Rolf Apweiler, Klaas 

van Wijk, Richard Smith, Lennart Markus, Mike McCoss, Steven Briggs, Phil Andrews 

18.30 

18.50 

19.10 

How to compile proteomes reliably 

Matthias Mann 

How to analyze data and how to make the data accessible and 

exchangeable efficiently 

Alexey I. Nesvizhskii 

How to make the data accessible and exchangeable efficiently 


The following discussion until 21.00 will be about the possibility/necessity/organization 

of a new HUPO initiative in “model organism proteomes”. 

28 29

Solutions for protein stabilization, separation, 

purification, and analysis 

Stop by BD Booth 80 

to learn more about 

our proteomics offering: 

BD P100 and P700 Blood Collection Tubes – 

stabilize plasma proteins for biomarker 

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For more information visit: 

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www.bdphosflow.com 

Visit BD 

at Booth 

80 

BD Diagnostics 

Preanalytical Systems 

1 Becton Drive 

Franklin Lakes, NJ 07417 

Sunday 17 August 2008 

location 

Exhibition hall 10 Room Forum Room A Room B Room CD Room EF 

time 

whole day Exhibition build-up Clinical Day 

HUPO 

Plasma Proteome 

Initiative 

HUPO 

Proteomics Standards 

09.00 - 12.00 

HUPO Cardiovascular 

Proteome Initiative 

HUPO 

Glycomics Initiative 

Workshop 

09.00 - 12.25 

Clinical Day 

Session I 

09.30 - 12.00 

Clinical Day 

Session II 

13.30 - 17.30 

18.30 - 21.00 



BD, BD Logo and all other trademarks are property of Becton, Dickinson and Company. © 2008 BD 

30 31


Biomarkers from Discovery to Clinical Application, 

Industry & Academia Views 

09.00 - 17.30 

room: Forum 

09.00 - 10.20 Biomarker Discovery & Implementation Perspectives 

09.00 - 09.40 Victor Jongeneel, Vice President for Research, 

The Cyprus Institute in Nicosia, Cyprus 

09.40 - 10.20 The Road to Diagnostic Proteomics: How far have we come? 

Sudhir Srivastava, NCI, Bethesda, USA 

10.20 - 10.40 

Coffeebreak 

10.40 - 12.25 Biomarkers for Heart, Liver & Pregnancy 

10.40 - 11.15 Heart disease biomarkers 

Hendrik Milting, Heart Centre, Bad Oeynhausen, Germany 

11.15 - 11.50 New biomarkers related to Preeclampsia 

Thomas Brinkmann, Beckman Coulter 

11.50 - 12.25 Discovery & Validation of Liver Biomarkers 

Kai Stuehler, Medizinisches Proteom-Center, Bochum, Germany 

12.25 - 13.30 

Lunch break on-site 

13.30 - 15.30 Biomarkers for Brain & Kidney Diseases 

13.30 - 14.00 Brain Stroke Biomarker Discovery 

Jean-Charles Sanchez, Geneva, Switzerland 

14.00 - 14.30 “S100B - a biomarker for Brain injury” 

Susanne Grüb, Roche, Basel, Switzerland 

14.30 - 15.00 Protein Profiles as Biomarker for Kidney Diseases 

Harald Mischak, Mosaique Diagnostics, Hannover, Germany 

15.00 - 15.30 Autoimmune Antibodies as Biomarkers for 

Neurodegenerative Diseases 

Stefan Müllner, Protagen AG, Dortmund, Germany 

15.30 - 16.00 

Coffee break 

16.00 - 16.30 Glyco-Biomarkers for Cancer 

16.00 - 16.30 Glycoproteins as Cancer Biomarker 

Naoyuki Tanaguchi, Osaka University, Japan 

16.30 - 17.30 

hupo clinical day 

Panel Discussion 

Biomarker from Discovery to Clinical Application 

What is the right way to succeed? 

Panellists from Industry, Academy & Agencies 

hupo initiatives program 

HUPO Glycomics Initiative Workshop 

09.30 - 12.00 

Chairs: Naoyuki Taniguchi, James Paulson and Hisashi Narimatsu 

room: A 

09.30 - 09.35 Welcome and Introduction of HGPI and the pilot studies 

N. Taniguchi (Osaka University) 

09.35 - 10.00 Report on the second HGPI pilot study-Comparison of the 

methods for profiling glycoprotein O-glycans 

S. Haslam and A. Dell (Imperial College) 

10.00 - 10.15 Glycan structural analysis of glycoproteins using O-linked 

glycan libraries 

H. Ito and H, Narimatsu 

(Advanced Institute for Science and Technology) 

10.15 - 10.30 Increased sensitivity in the profiling of mucin O-glycans with 

negative mode nanoLC-mass spectrometry 

K.A. Thomsson, M. Backstrom, H. Karlsson, and G.C. Hansson 

(University of Gothenburg) 

10.30 - 10.50 “Horses for Courses: Bringing glycan analysis to biologists” 

N. Packer, P. Jensen, A. Lee, N, Deshpande, M, Nakano, and D, 

Kolarich. (Macquarie University) 

10.50 - 11.10 Aberrant O-glycosylation of IgA1 and the Pathogenesis of 

IgA Nephropathy 

M. Renfrow 

11.10 - 11.30 “Malectin - a candidate player in the folding/quality control of 

N-glycoproteins and disorders underlying human diseases” 

Ten Feizi (Imperial College) 

11.30 - 11.50 Biomarker for stem cells 

M. Pierce (University of Georgia) 

General Discussion 

Catherine Costello (Boston University) 

HUPO Cardiovascular Proteomics Initiative 

room: B 

09.00 - 12.00 

Chairs: Peipei Ping (Los Angeles, USA), Mario Hugo Genero (Buenos Aires, Argentina) 

and Thomas Vondriska (Los Angeles, USA) 

09.00 Keynote Lecture 

Susan Old, NHLBI, USA 

09.45 Featured Talk 

MingMing Ning, Boston, USA 

32 33


Fernando Vivanco, Madrid, Spain 


Arjen Scholten, Utrecht, The Netherlands 


Ruth Lovering, London, UK 

11.30 Round Table Discussion 

“HUPO CVI: Components of the Human Proteome Project”. 

Frank Vitzthum, Manuel Mayr, Susan Old, Jennifer Van Eyk, Peipei Ping. 

HUPO Proteomics Standards Initiative (PSI) 

room: CD 

09.30 - 12.00 

Session chair: Pierre-Alain Binz, Swiss Institute of Bioinformatics, Geneva, Switzerland 

The HUPO Proteomics Standards Initiative (PSI) defines community standards for data 

representation in proteomics to facilitate data comparison, exchange and verification. 

We will present recent progress across PSI work groups, both in the development of 

standards, and in the collaboration with journal editors on implementation of standards 

as part of the scientific publishing process. 

1. Design and implementations of the new PSI’s mass spectrometer 

output file standard format: mzML 1.0 

Jim Shofstahl, Thermo Electron, San Jose, USA 

2. Recent progress on analysisXML, the mass spectrometry analysis format 

Martin Eisenacher, “Medizinisches Proteom-Center”, 

Ruhr-Universität Bochum, Germany 

3. PEFF, a common sequence database format in proteomics 

Pierre-Alain Binz, Swiss Institute of Bioinformatics, Geneva, Switzerland 

4. Molecular Interaction Standards – from file format to confidence scoring 

Sandra Orchard, European Bioinformatics Institute, Cambridge, UK 

Human Plasma Proteome Initiative Workshop 

09.30 - 12.00 

Chairs: Gil Omenn, Ruedi Aebersold and Young-Ki Paik 

room EF 

1. Technology Platforms 

led by Ruedi Aebersold 

2. Informatics Platforms and Repositories 

led by Eric Deutsch and Lennart Martens 

3. Engagement of research groups for submission of major datasets 

led by Gil Omenn & Young-Ki Paik 

4. Integration across HUPO Initiatives, featuring chairs of other HUPO 

initiatives 


location 

Room M Room B Room CD Room EF 

Room 

N-N1-O1-O 

Room Forum Room A Room L 

Room 

Auditorium 

Forum Ground 

Floor 

time 

Speaker Ready 

Room 

Registration & 

Information 

whole day 

Corporate Workshop 

Promega 


Qiagen 

07.00 - 07.50 

08.00 - 08.45 Tony Pawson 

08.45 - 09.30 Hans Clevers 

09.30 - 11.00 Break & Posters in Exhibition Hall 10 

S5 

Standards for 

Clinical Proteomics 

S4 

Mass Spectrometric 

Innovations 

S3 

Innovation in Peptide & 

Protein Separation 

Technologies 

S2 

Molecular Mass 

Imaging 

S1 

Reagents for 

proteomics 

11.00 - 12.30 


Bruker Daltonics 


Applied Biosystems 


Agilent Technologies 

12.30 - 14.00 Lunch, Poster Session & Exhibition in Exhibition Hall 10 

S10 

Cardiovascular 

Proteome Biology 

S9 

Yeast proteomics; 

sparks for new biology 

S8 

C. elegans and 

Drosophila 

S7 

Plant proteomics 

S6 

Organelle and biological 

membranes Proteomics 

14.00 - 15.30 


16.00 - 16.30 Opening Ceremony 

16.30 - 17.15 Mathias Uhlén 

17.15 - 18.00 Ruedi Aebersold 

18.00 - 19.00 Welcome Reception 



34 35

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The Night Watch, 1642 

Rembrandt van Rijn 1606-1669 

Rijksmuseum, Amsterdam 

The title of the Night Watch seems to refer to the content of this famous painting, but was introduced 

in the 18th century, based on a misapprehension due to dulling of the painting’s surface. However, it 

is a day lit scene. 

The original title of the Night Watch was: The Company of Frans Banning Cocq and Willem van 

Ruytenburch. Rembrandt depicted a division of the civic guard, called Arquebusiers after the arquebus, 

a sixteenth-century long-barrelled gun. He displayed the traditional emblem of the Arquebusiers in a 

natural way. The chicken claws on the belt of the girl in the yellow dress represent the ‘Clauweniers’- 

Arquebusiers. The long-barreled gun, the arquebus, is clearly visible against her yellow dress. The man 

in front of her is wearing a helmet with an oak leaf - a traditional motif of the Arquebusiers. 

Interestingly, only those who paid were included in the group portrait. Except for the drummer, who 

was hired and therefore allowed to be in the painting for free. It is said that Rembrandt cleverly 

included himself in the background of this painting. His eye, nose, part of his forehead, and his painter’s 

beret are visible above the Captain’s head. 

36 37

Plenary Speakers Monday 

Tony Pawson 

Hans Clevers 

BIOGRAPHY 

Tony Pawson was an undergraduate at the University of Cambridge (1970-1973), 

obtained his Ph.D. at the Imperial Cancer Research Fund, London, and did postdoctoral 

work at the University of California at Berkeley (1976-1980). He moved to the University 

of British Columbia as an Assistant Professor, and then to the Samuel Lunenfeld 

Research Institute of Mt. Sinai Hospital, University of Toronto in 1985, where he 

was Director of Research (2000-2005). Over the last 25 years he has explored the 

mechanisms through which modular protein-proteins interactions control intracellular 

signaling networks, building on the identification of the SH2 domain as the prototypic 

interaction module. 

abstract 

Proteomic analysis of reciprocal cell signalling 

T. Pawson, C. Jorgensen, A. Sherman, Samuel Lunenfeld Reseach Institute 

Mt. Sinai Hospital, 600 University Avenue, Toronto, ON M5G 1X5, Canada 

Signaling proteins are typically constructed in a modular fashion, from domains 

that mediate either molecular interactions or catalytic events, and corresponding 

interaction or substrate motifs. The joining of domains in new combinations can provide 

novel functions in evolution, both by creating new intermolecular connections, and by 

forming new and varied modes of allosteric regulation. This notion will be discussed in 

the context of cytoplasmic tyrosine kinases such as Fes and Abl. 

Intercellular signaling is typically investigated experimentally in the context of a signal, 

such as a growth factor, impinging on a receptor on a target cell. In vivo, however, 

neighboring cells often signal back-and-forth in a reciprocal fashion. We have used a 

combination of proteomic and functional screens to investigate the means by which 

cells exchange and respond to such two-way signals, using phosphotyrosine-based 

intracellular networks. 

BIOGRAPHY 

Hans Clevers obtained his MD degree in 1984 and his PhD degree in 1985 from the 

University of Utrecht, the Netherlands. His postdoctoral work (1986-1989) was done 

with Cox Terhorst at the Dana-Farber Cancer Institute of the Harvard University, 

Boston, USA. 

From 1991-2002, Hans Clevers was Professor in Immunology at the University of 

Utrecht and, since 2002, Professor in Molecular Genetics. Since 2002, he is Director 

of the Netherlands Institute for Developmental Biology, Utrecht. 

Hans Clevers has been a member of the Royal Dutch Academy of Sciences since 2000 

and is the recipient of several awards, including the Dutch Spinoza Award in 2001, the 

Swiss Louis Jeantet Prize in 2004, the Memorial Sloan-Kettering Katharine Berkan 

Judd Award in 2005 and the Israeli Rabbi Shai Shacknai Memorial Prize in 2006. 

abstract 

Identification of stem cells in small intestine and colon by a single marker gene lgr5 

H. Clevers, Hubrecht Institute, Uppsalalaan 8, 3584 CT Utrecht, the Netherlands 

The intestinal epithelium is the most rapidly self-renewing tissue in adult mammals. 

Current models state that 4-6 crypt stem cells reside at the +4 position immediately 

above the Paneth cells in the small intestine; colon stem cells remain undefined. Lgr5/ 

Gpr49 was selected from a panel of intestinal Wnt target genes for its restricted 

crypt expression. Two knock-in alleles revealed exclusive expression of Lgr5 in cycling, 

columnar cells at the crypt base. In addition, Lgr5 was expressed in rare cells in 

several other tissues. Using an inducible Cre knock-in allele and the Rosa26-LacZ 

reporter strain, lineage tracing experiments were performed in adult mice. The 

Lgr5+ve crypt base columnar cell (CBC) generated all epithelial lineages over a 60-day 

period, implying that it represents the stem cell of the small intestine and colon. The 

expression pattern of Lgr5 suggests that it marks stem cells in multiple adult tissues 

and cancers. 

38 39



BIOGRAPHY 

Mathias Uhlén is Professor of Microbiology at the Royal Institute of Technology (KTH), 

Stockholm, Sweden. Prof. Uhlén is member of the Royal Swedish Academy of Engineering 

Science (IVA), the Royal Swedish Academy of Science (KVA) and the European Molecular 

Biology Organization (EMBO). He is Vice-President of the European Proteomics 

Association (EuPA) and member of the Human Proteome Organization (HUPO) council. 

He was Vice-President of the Royal Institute of Technology (KTH), responsible for 

external relations, from 1999 to 2001 and he was the chairman of the Swedish 

Biochemical and Molecular Biology Society (SFMB) from 1994 to 1999. Prof. Uhlén has 

more than 300 publications in bioscience with the focus on the development and use 

of affinity reagents in biotechnology and biomedicine. 

abstract 

A Human Protein Atlas 


Royal Institute of Technology, School of Biotechnology, AlbaNova University Center, 

Stockholm, Sweden, +46 8 5537 8325, E-mail: mathias@biotech.kth.se 

The new version 4.0 of the Human Protein Atlas (www.proteinatlas.org) has been 

generated with more than 6,000 validated antibodies corresponding to 5,000 human 

genes. The portal contains more than 4 million high-resolution images generated 

by immunohistochemistry and confocal microscopy. Each image has been manually 

annotated and curated by a certified pathologist to provide a knowledge base for 

functional studies and to allow searches and queries about protein profiles in normal 

and disease tissue. A new structure has been implemented with the inclusion of all 

predicted genes (approximately 20,500) with a visualization of the encoded protein 

characteristics for all genes. A new search tool is also launched in which advance 

queries can be performed, including searches for chromosome location, protein class 

and/or tissue specificity. Our results suggest that it should be possible to extend 

the protein atlas to a majority of all human proteins thus providing a valuable tool for 

medical and biological research. 

Berglund et al (2008) “The epitope space of the human proteome” Protein Science 17, 606-613. 

Björling et al (2008) “A web-based tool for in silico biomarker discovery based on tissue-specific protein profiles in normal and 

cancer tissues” Mol Cell Proteomics 7(5): 825-44. 

Barbe et al (2008) “Toward a confocal subcellular atlas of the human proteome” Mol Cell Proteomics. 7(3):499-508 

BIOGRAPHY 

Ruedi Aebersold is the Professor for Molecular Systems Biology at ETH Zurich and 

the University of Zurich, Switzerland and co-founder of the Institute for Systems 

Biology in Seattle, WA. Research in his group is focused on the development and the 

application of proteomics technologies towards a better understanding of biological 

systems and processes. 

abstract 

Proteome biology 

Ruedi Aebersold - ETH Zurich, Switzerland, Institute of Molecular Systems Biology, USA 

aebersold@imsb.biol.ethz.ch 

Biological processes can be viewed as networks of interacting components, whereby 

the structure and dynamics of the network determines the properties of the process. 

Different types of such networks concurrently exist in the cell and many consist of or 

contain proteins. Examples include protein:protein interaction networks, networks of 

enzymes and their substrates, networks of microRNA’s and their targets, protein:DNA 

interaction networks etc. The study of such networks requires proteomic technologies 

that are capable of detecting and quantifying any protein of a given network, to 

determine the network connections and their dynamic change and to relate the results 

of measurements made on cell or tissue extracts back to the living cell. 

In this presentation we will discuss technical and conceptual advances in proteomics 

that support proteome biology. These include the ability to detect reliably and quantify 

essentially any protein in a yeast cell by targeted, SRM based high sensitivity mass 

spectrometry, the ability to determine the true composition of protein complexes 

that exist in the cell and to visualize them in near life cells, and the ability to measure 

phosphorylation modulated regulatory networks. The technical advances will be 

illustrated with suitable examples. 

40 41

Full Program details 


8.00-8.45 Plenary 1 Proteomic analysis of reciprocal cell signaling room: Auditorium 

Tony Pawson (Samuel Lunenfeld Research Institute, CANADA), 

claus Jorgensen, Andrew Sherman 

Chairperson: Anne-Claude Gavin 

8.45-9.30 Plenary 2 IDENTIFICATION OF STEM CELLS IN SMALL INTESTINE AND Room: Auditorium 

COLON BY A SINGLE MARKER GENE LGR5 

Hans Clevers (Hubrecht Institute, THE NETHERLANDS) 

Chairperson: Albert Heck 

S3 Innovation In Peptide & Protein Separation Technologies Room: A 11.00-12.30 

Chairpersons: Rong Zeng & Martijn Pinkse 

Separation and Identification of Phosphopeptides Based on Multiple Dimensional Liquid 11.00-11.30 

Chromatography Mass Spectrometry 

Jie Dai, Qing-Run Li, Chia-Hui Shieh, Rong Zeng (Shanghai Institutes for Biological Sciences, CHINA) 

Coupling Immobilized Enzyme Microreactors with MICRORPLC-MS/MS for Protein Analysis 11.30-11.50 

Junfeng Ma (Dalian Institute of Chemical Physics, Chinese Academy of Sciences, CHINA), Lihua Zhang, 

Zhen Liang, Yukui Zhang 

3D-GEL Electrophoresis, A New Approach to Comparative Protein Analysis 11.50-12.10 

Robert Ventzki (European Molecular Biology Laboratory, GERMANY), Sjouke Hoving, Jan van Oostrum, 

Josef Stegemann 

High Sensitivity RP/RP/LC/MS Platform for Assessing Protein Complex Dynamics 12.10-12.30 

Scott Ficarro (Dana-Farber Cancer Institute, UNITED STATES), Feng Zhou, Guillaume Adelmant, Job Cardoza, 

Manor Askenazi, Jarrod Marto 

11.00-12.30 S1 Reagents For Proteomics room: Auditorium 

Chairpersons: Andreas Plückthun & Hermen Overkleeft 

11.00-11.30 Novel binding proteins by design and evolution 

Andreas Plückthun (University of Zurich, SWITZERLAND) 

11.30-11.50 Antibody QA Pipeline For Proteomics Researchers: Nci’s Antibody Characterization Program 

Henry Rodriguez, Mehdi Mesri, Gordon Whiteley, Chris Kinsinger (National Cancer Institute/National Institutes 

of Health, UNITED STATES) 

11.50-12.10 Fluorescent Isotope Coded Affinity Tag (FCAT) for Quantitative Proteomics 

Andras Guttman (Horvath Laboratory of Bioseparation Sciences, AUSTRIA), Zuly Rivera 

12.10-12.30 Design of Recombinant SCFV Antibodies for High-Throughput Affinity-Based Proteomics 

Malin Kristensson (Lund University, SWEDEN), Jacob Vallkil, Katarina Loof, Carl AK Borrebaeck, Christer Wingren 

S4 Mass Spectrometric Innovations Room: L 11.00-12.30 

Chairperson: Carol Robinson 

Subunit Architecture of Multiprotein Complexes Isolated Directly from Cells - Insights from 11.00-11.30 

Mass Spectrometry of Intact Complexes 

Caron Robinson (University of Cambridge, UNITED KINGDOM), H Hernández, AM Sandercock, M Zhou, 

B Ruotolo, T Nelson, P Barrera 

High Resolution Mass Spectrometry to Study Functional Protein Complexes 11.30-11.50 

Esther van Duijn (Utrecht University, THE NETHERLANDS), Charlotte Uetrecht, Arjen Barendregt, 

Kees Versluis, Albert Heck 

Microfluidic Platform for ESI (DESI) and MALDI (LDI) Shotgun Proteomic Analysis 11.50-12.10 

Daniel Knapp (Medical University of South Carolina, UNITED STATES), Jian Liu, Ranu Nayak, Daniel Higbee 

Targeted Peptide Identification Based on Selected Reaction Monitoring 12.10-12.30 

Bruno Domon (ETH Zurich, SWITZERLAND), Paola Picotti, Nathalie Selevsek, Ruedi Aebersold 

11.00-12.30 S2 Molecular Mass Imaging room: Forum 

Chairperson: Richard Caprioli 

11.00-11.30 Molecular Imaging and Profiling of Tissues with Mass Spectrometry: 

applications in Biological and Clinical Research 

Richard Caprioli (Vanderbilt University, UNITED STATES) 

11.30-11.50 Direct Mass Spectromectric Imaging of Human Brain Tissue 

Ron M.A. Heeren (FOM Institute for Atomic and Molecular Physics, THE NETHERLANDS), Kükrer Kaletas, 

Ingrid van der Wiel, Jonathan Stauber, Lennart Dekker, C. Güzel, Theo M. Luider 

11.50-12.10 Protein Unlocking of Formalin Stored (FFPE) Tissues: Application to MALDI-TOF-IMAGING-MS 

Maurizio Ronci (European Centre for Brain Research (CERC), Fondazione - Santa Lucia, ITALY), Elena Bonanno, 

Alfredo Colantoni, Luisa Pieroni, Carmine di Ilio, Luigi Giusto Spagnoli, Giorgio Federici, Andrea Urbani 

12.10-12.30 On Tissue Fractionation: Unmasking Difficult Proteins for MALDI profiling 

Isabelle Fournier (University of Lille 1, Laboratoire de Neuroimmunologie des Annelides, FRANCE), 

David Bonnel, Julien Franck, Maxence Wisztorski, Mohamed El Ayed, Michel Salzet 

S5 Standards For Clinical Proteomics room: N-N1-O1-O 11.00-12.30 

Chairpersons: Henry Rodriguez & Christian Stephan 

Introduction by Henry Rodriguez 11.00-11.10 

Performance and Optimization of LC-MS/MS Platforms for Proteomic Analyses: An Interlaboratory Study 11.10-11.30 

Daniel Liebler (Vanderbilt University School of Medicine, UNITED STATES), Amanda Paulovich 

Verification of Candidate Protein Biomarkers: Reproducibility of MRM-BASED Assays 11.30-11.50 

Steven Hall (University of California San Francisco, UNITED STATES), Terri Addona, Steven Skates, David Bunk 

Measures of Variability in Shotgun Proteomics Experiments 11.50-12.10 

Steve Stein (National Institute of Standards and Technology, UNITED STATES), Lisa Kilpatrick, 

Yuri Mirokhin, Paul Rudnick, Dmitrii Tchekhovskoi, Eric Yan, Xiouyu Yang 

Absolute Silac for Accurate Quantitation of Proteins in Complex Mixtures Down to the Attomole Level 12.10-12.30 

Stefan Hanke (Max-Planck-Institute for Biochemistry, Dept of Proteomics and Signal Transduction, GERMANY), 

Hüseyin Besir, Dieter Oesterhelt, Matthias Mann 

42 43



14.00-15.30 S6 Organelle And Biological Membranes Proteomics room: Auditorium 

Chairpersons: John Bergeron & Bert Poolman 

14.00-14.30 The Protein Microscope and Organellar Proteomics 

John Bergeron (McGill University, CANADA), Catherine Au, Michael Jain, Jeff Smirle, Alexander Bell, Tommy Nilsson 

14.30-14.50 Membrane Proteome of the Yeast Nuclear Envelope 

L.M. Veenhoff (University of Groningen, THE NETHERLANDS), J.A. Demmers, M.C. King, A.C. Meinema, B. Poolman 

14.50-15.10 Organelle Mapping of the Human Proteome - Towards a Subcellular Atlas 

Emma Lundberg (School of biotechnology, Royal institute of Technology (KTH), SWEDEN), Laurent Barbe, 

Per Oksvold, Anna Stenius, Erik Björling, Anna Asplund, Fredrik Pontén, Hjalmar Brismar, Mathias Uhlén, 

Helene Andersson-Svahn 

15.10-15.30 Proteome of Hydrogenosomes and Mitosomes 

Petr Jedelsky (Charles University in Prague, Faculty of Science, CZECH REPUBLIC), Miroslava Sedinova, 

Petr Rada, Neritza Campo Beltran, Jan Tachezy 

S9 Yeast Proteomics; Sparks For New Biology room: L 14.00-15.30 

Chairpersons: Mike Tyers & Liesbeth Veenhoff 

Systematic Interrogation of the Budding Yeast Kinome 14.00-14.30 

Ashton Breitkreutz, Brett Larsen, Hyungwon Choi, Zhen-Yuan Lin, Jeff Sharom, Lorrie Boucher, Danielle Dewar, 

Rune Linding, Tony Pawson, Anne-Claude Gingras, Alexey Nesvizhskii, Mike Tyers (Samuel Lunenfeld Research Institute, 

Mount Sinai Hospital, CANADA, Wellcome Trust Centre for Cell Biology, School of Biological Sciences, 

University of Edinburgh, UNITED KINGDOM) 

An in Vivo Map of the Yeast Protein Interactome 14.30-14.50 

Kirill Tarassov, Vincent Messier, Christian R. Landry, Stevo Radinovic, Mercedes M. Serna Molina, Igor Shames, 

Yelena Malitskaya, Jackie Vogel, Howard Bussey, Stephen W. Michnick (Département de Biochimie, 

Université de Montréal, Centre Robert-Cedergren, Bio-Informatique et Génomique, CANADA) 

The Yeast Nuclear Proteome: Composition and Complexes 14.50-15.10 

Sharon Gauci (Utrecht University, THE NETHERLANDS), Liesbeth M. Veenhoff, Albert J. R. Heck, Jeroen Krijgsveld 

Analysis of the S. Cerevisiae Metabolic Network by Targeted Proteomics 15.10-15.30 

Paola Picotti (Institute of Molecular Systems Biology, ETH Zuerich, SWITZERLAND), Anne Kuemmel, Roeland Costenoble, 

Henry Lam, David Campbell, Matthias Heinemann, Eric Deutsch, Uwe Sauer, Bruno Domon, Ruedi Aebersold 

14.00-15.30 S7 Plant Proteomics room: Forum 

chairperson: Steven Briggs 

14.00-14.30 Quantitative Changes in the Arabidopsis Proteome Caused by Pathogen Signals 

SP Briggs (University of California San Diego, UNITED STATES), Z Shen, C van Schie, A Mason, S Payne, 

N Castellana, V Bafna, EH Chung, J Dangl 

14.30-14.50 Digging Into the Plant Proteome 

Sergey Sikora (GenWay Biotech, Inc, UNITED STATES), Lei Huang, Xiangming Fang 

14.50-15.10 Proteomic Analysis of the Endophytic Interaction of Gluconacetobacter Diazotrophicus with Sugarcane 

Leticia Lery (Unidade Multidisciplinar de Genômica, Universidade Federal do Rio de Janeiro, BRAZIL), 

Eduardo Nogueira, Wanda von Kruger, Adriana Hemerly, Paulo Bisch 

15.10-15.30 Profiling of Receptor-like Kinases Membrane Protein Family in Arabidopsis Thaliana 

Fabrizia Fusetti (Department of Biochemistry, University of Groningen, THE NETHERLANDS), 

Hamid Najafi Zarrini, Wim Huibers, Theo Elzenga, Frank Lanfermijer, Bert poolman 

S10 Cardiovascular Proteome Biology roomN-N1-O1-O 14.00-15.30 

Chairpersons: Peipei Ping & Arjen Scholten 

Session sponsored by 

The Dynamics of Mitochondrial Proteome in the Murine Heart 14.00-14.30 

Peipei Ping (UCLA, UNITED STATES) 

Development of a Novel Immunoassay for Characterizing Circulating Form of Cardiac Troponin 14.30-14.50 

Jennifer Van Eyk (Bayview proteomics center, Johns Hopkins University, UNITED STATES), Yixin lin, Qin Fu 

Nitric Oxide Induced Changes of the Heart Phosphoproteome 14.50-15.10 

Annamária Simon (Institute of Cardiovascular Physiology, Heinrich-Heine-University of Düsseldorf, GERMANY), 

Michael Reinartz, Ulrich Flögel, Jürgen Schrader 

Profiling Protein Expression in Human Dilated Cardiomyopathy; Global and Targeted Analyses 15.10-15.30 

Arjen Scholten (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht University, THE NETHERLANDS), 

Thin-Thin Aye, Marcel van der Heyden, Marc Vos, Toon van Veen, Albert Heck 

14.00-15.30 S8 C. Elegans And Drosophila room: A 

Chairpersons: Michael Hengartner & Michael O. Glocker 

14.00-14.30 Idenfication and Characterization of the C. Elegans Proteome 

Michael Hengartner (University of Zurich, SWITZERLAND) 

14.30-14.50 System-Wide Analysis of Phosphatase Knock-Down in Drosophila by Quantitative Proteomics 

Maximiliane Hilger (Department of Proteomics and Signal Transduction, Max-Planck Institute for 

Biochemistry, GERMANY), Tiziana Bonaldi, Florian Gnad, Chanchal Kumar, Jürgen Cox, Matthias Mann 

14.50-15.10 Genome-Wide Characterization of Proteins Involved in Cell-Cycle Regulation 

Mikael Björklund (University of Helsinki and National Public Health Institute, FINLAND), Mikko Turunen, 

Martin Bonke, Maria Sokolova, Minna Taipale, Jussi Taipale 

Plenary 3 A HUMAN PROTEIN atlas room: Auditorium 16.30-17.15 

Mathias Uhlén (AlbaNova University Center, SWEDEN) 

Chairperson: Peipei Ping 

Plenary 4 Proteome Biology room: Auditorium 17.15-18.00 

Ruedi Aebersold (ETH Zürich, SWITZERLAND 

institute of Molecular Systems Biology, United States) 

Chairperson: Denis Hochstrasser 

1510-1530 QUANTITATIVE PROTEOME ATLAS OF THE ADULT HONEY BEE CASTES 

Queenie Chan (University of British Columbia, CANADA), Yuan Fang, Man Yi Chan, Michelle Logan, 

Heather Higo, Leonard Foster 

44 45

GE Healthcare 

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© 2008 General Electric Company – All rights reserved. 

First published Aug 2008 

GE Healthcare Bio-Sciences AB, Björkgatan 30, 751 84 Uppsala, Sweden 

GE11-08 


location 

Room M Room B Room CD Room EF Room P 

Room 

N-N1-O1-O 


Room 

Auditorium 

Forum Ground 

Floor 

time 

Speaker Ready 

Room 


Information 

whole day 


GE Healthcare 


Rosetta Biosoftware 

07.00 - 07.50 

08.00 - 08.45 Peter Andrews 

08.45 - 09.30 Matthias Mann 


S15 

Glycoproteomics 

S14 

Alternative splicing & 

protein processing 

S13 

EuPA Young 

Investigator Session 

S12 

Computational 

approaches to mine 

proteomic data 

S11 

Phosphoproteomics 

11.00 - 12.30 


Promega 




Dionex 


Thermo Scientific 


S20 

Proteomics of the 

nervous systems 

S19 

Proteomics and 

epigenetics 

S18 

Proteomics of 

Macro-molecular 

Complexes 

S17 

Kinase-protein 

substrate networks 

S16 

Chemical 

Proteomics 

14.00 - 15.30 


16.00 - 16.45 Anne-Claude Gavin 

16.45 - 17.30 Erin O’Shea 

HUPO General 

Assembly 

17.30 - 19.30 

Translating biomarkers 

from the bench to 

the bedside 

(Salvatore Sechi) 

20.00 - 22.30 

Workshop on 

Proteomics Validation 

Sudhir Srivastava & 

William Hancock 

Publishing in 

Proteomics: 

A dialogue of investigators 

and journals 

(Peipei Ping) 

20.00 - 22.00 



46 47

Plenary Speakers Tuesday 

Peter Andrews 

Matthias Mann 

BIOGRAPHY 

Peter Andrews is Professor of Biomedical Science at Sheffield University, where he 

also co-directs the Centre for Stem Cell Biology. His research focuses on the biology 

of human ES cells. He co-ordinates the International Stem Cell Initiative, focused upon 

characterising human ES cells. 

abstract 

Population Dynamics, Self Renewal and Culture Adaptation of Human ES cells 

Peter W Andrews, Centre for Stem Cell Biology and Department of Biomedical Science, 

The University of Sheffield, Sheffield, S10 2TN, UK 

Teratocarcinomas, a subset of germ cell tumours, have long provided a paradigm for 

the stem cell concept of cancer, and the role of their stem cells, embryonal carcinoma 

(EC) cells, in their development is well known. Embryonic stem (ES) cells isolated 

from early embryos are the apparently ‘normal’ counterpart of tumour-derived EC 

cells. However, ES cells may acquire non-random karyotypic changes on prolonged 

culture. In human ES cells, these changes typically involve gain of genetic material 

from chromosomes 17, 12 and X, and resemble similar changes observed in EC cells 

from testicular teratocarcinomas, one of the most common cancers of young men. 

As a working hypothesis, we can imagine that the over expression of genes located 

on these chromosomes increases the probability of self renewal of pluripotent stem 

cells, at the expense of commitment to differentiation or apoptosis. A corollary is the 

proposition that these genes play a key role in regulating stem cell behaviour and their 

disruption may affect tumour progression, particularly in germ cell tumours, in which 

enhanced self renewal capacity might equate to a more aggressive tumour phenotype. 

A key problem is to identify the genes that contribute this type of selective overgrowth 

of variant stem cells in which they are over expressed. The available data suggest that 

only a relatively small number of genes is involved, maybe as few as five, but that these 

may act independently on different aspects of the control of stem cell behaviour. 

Identification of these genes would provide the basis for developing better techniques 

for ES cell culture to avoid selection pressure for over-expressing variants. It may 

also provide insights into the development and progression of teratocarcinomas, and 

provide a model for understanding other stem cell based cancers. 

BIOGRAPHY 

Matthias Mann received his doctorate degree from Yale University with John Fenn, 

where he contributed to the development of electrospray mass spectrometry. Prof. 

Mann is now a director at the Max-Planck Institute of Biochemistry in Martinsried, 

Germany. His group continues to develop proteomics technology and to address cell 

signaling problems using proteomics. 

abstract 

Spatio-temporal proteomics 

M. Mann - email: mmann@biochem.mpg.de, J.V. Olsen, C. Robles, C. Choudhary, N.C. 

Hubner, J. Graumann, J. Cox, F. Forner, C. Kumar and H. Serve*. 

Dept. of Proteomics and Signal Transduction, Max Planck Institute for Biochemistry, 

Am Klopferspitz 18, D-82512 Martinsried near Munich, Germany. 

*Dept. Internal Medicine, University of Frankfurt, Germany 

Mass spectrometry-based proteomics has usually been performed in a qualitative 

format although the community is rapidly realizing that biological conclusions can best 

be obtained from quantitative data. Quantitation allows measurement of spatial as 

well as temporal proteomes. This capability in turn makes proteomics an excellent 

complement to powerful imaging methods used in modern cell biology. Proteomics is 

unbiased and can be used in a ‘discovery mode’ whereas imaging technologies have 

higher sub-cellular resolution and are single cell based. Here I discuss recent technology 

developments and applications of quantitative proteomics combined with imaging 

technologies. 

Signalling can be different in quantity and quality depending on the intracellular compartment. 

Here we employed quantitative phosphoproteomics to show that the Flt3 

receptor with an internal tandem domain (ITD), which is the most common kinase 

mutation in Acute Myeloid Leukaemia, signals differently as a result of different compartmentalization. 

Temporal proteomics has first been demonstrated in the context of tyrosine signalling. 

Here we show that the temporal evolution of both the phosphoproteome and the 

proteome can be followed in SILAC based proteomics. 

Finally, we introduce PROSPECTS (Proteomics in Space and Time), a large European 

proteomics network, whose purpose is the elucidation of spatio-temporal proteomics 

by a combination of different technologies. 

48 49


Erin O’Shea 

BIOGRAPHY 

Anne-Claude Gavin is Group Leader in the Structural and Computational Biology Unit 

at the European Molecular Biology Laboratory, Heidelberg. Before joining the EMBL 

she was a scientific director at Cellzome AG. In 2002 she received the Genome 

Technology All-Stars Award in proteomics. Her group has been proponent and pioneer 

of more general strategies aiming at understanding complex biological systems. With 

more than 1.500 citations, the system-wide characterization of protein complexes 

in a model eukaryote, Saccharomyces cerevisiae, by affinity purification and mass 

spectrometry is generally considered as a breakthrough. Her main research interest 

includes the study of biomolecular interaction, the understanding of the principles that 

govern the assembly and dynamics of protein networks. 

abstract 

The social network of a cell: dynamic protein interactions 

Anne-Claude Gavin, EMBL Heidelberg, Germany, gavin@embl.de 

Recent developments in the -omics field have provided comprehensive repertoires 

of RNAs, proteins, metabolites that constitute the cell building blocks. The next 

challenge resides in the understanding of how the “pieces” of this puzzle assemble, 

combine and contribute to the assembly of a coherent entity; a cell. Biology relies on 

the concerted action of a number interacting proteins and metabolites operationally 

organized in cellular pathways or networks. However, current appreciation of the “wiring 

diagram” or “molecular maps” of these pathways is scanty. We used tandem-affinity 

purification and mass spectrometry (TAP/MS) to perform a system-wide analysis for 

protein complexes in a model organism, budding yeast. The study provides one of the 

largest collections of physically-determined eukaryotic cellular machines. Beyond the 

repertoire, the analysis captures the modular nature of proteomes. In an attempt 

to move from static interaction networks to more dynamic maps, we developed an 

innovative scoring system that captures some biochemical properties of proteinprotein 

interaction: the likelihood to be in direct physical contact and, weakly, the 

dissociation constants. We believe that in the future, experimental and computational 

refinements may turn such scoring approaches into suitable parameters for rational 

modeling of (entire) systems. 

BIOGRAPHY 

Dr. O’Shea is an Investigator of the Howard Hughes Medical Institute, Director of 

the Harvard Faculty of Arts Sciences Center for Systems Biology and Professor of 

Molecular and Cellular Biology and Chemistry and Chemical Biology at Harvard University. 

She received her undergraduate degree from Smith College and her Ph.D. degree from 

the Massachusetts Institute of Technology. Dr. O’Shea’s honors include the National 

Academy of Sciences Award in Molecular Biology, a Packard Foundation Fellowship, 

and a Presidential Faculty Fellow Award. She is a member of the American Academy of 

Arts and Sciences and the National Academy of Sciences. 

abstract 

Signaling Nutrient Limitation 

E. O’Shea, Harvard University 

Howard Hughes, Medical Institute, Harvard Faculty of Arts and Sciences Center for 

Systems Biology, Departments of Molecular and Cellular Biology and Chemistry and 

Chemical Biology, Harvard University, 7 Divinity Avenue, Cambridge MA USA 

In conditions of nutrient limitation, cells maintain homeostasis by altering metabolomic, 

proteomic, and genomic profiles. Many nutrient-starvation response systems have 

been intensively studied in Saccharomyces cerevisiae; the cellular response to inorganic 

phosphate starvation is one of the best characterized. Our recent work has revealed 

that myo-d-inositol heptakisphosphate (IP7) is produced in response to phosphate 

limitation and regulates the activity of a protein kinase complex that coordinates 

downstream cellular responses. We are currently investigating the mechanism of 

action of IP7 and studying the metabolic changes that occur when cells are limited for 

inorganic phosphate. 

50 51



8.00-8.45 Plenary 5 Population Dynamics, Self Renewal and Culture Room: Auditorium 

Adaptation of Human ES cells 

Peter Andrews (University of Sheffield, UNITED KINGDOM) 

Chairperson: Jeroen Krijgsveld 

8.45-9.30 Plenary 6 Spatio-temporal proteomics room: Auditorium 

Matthias Mann (Max Plank Institute for Biochemistry, GERMANY), 

Jesper Olsen, Charo Robles, Nina Hubner, Johannes Graumann, 

Juergen Cox, Francesca Forner, Chanchal Kumar, Hubert Serve 

Chairperson: Ruedi Aebersold 

S13: EuPA Young Investigator Session room: A 11.00-12.30 

Chairperson: Concha Gil 

A Novel Approach Enabling Exploratory and Targeted Analysis with a Single LC-injection 11.05-11.22 

Leonie F Waanders (Max Planck Institut for Biochemistry, GERMANY), Reinaldo Almeida, Peter Bandilla, 

Mark H Allen, Gary A Schultz, Matthias Mann 

On-Line Automated In Vivo Zebrafish Phosphoproteomics 11.22-11.39 

Simone Lemeer (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht University, Hubrecht Institute, 

THE NETHERLANDS), Shabaz Mohammed, Bas van Breukelen, Jeroen den Hertog, Monique Slijper, Albert Heck 

DLK1 Functions in Stem Cells Studied by Quantitative Phosphoproteomics by ITRAQ and SIMAC 11.39-11.56 

Tine E. Thingholm (University of Southern Denmark, DENMARK), Bassem M. Abdallah, Moustapha Kassem, 

Ole N. Jensen 

Analysis of the Yeast Protein Kinase - Substrate Networks by Quantitative Phosphoproteomics 11.56-12.13 

Bernd Bodenmiller (Institute of Molecular Systems Biology, ETH Zurich, SWITZERLAND), Paul Shannon, Bertran 

Gerrits, Claudine Kraft, Mi-Youn Brusniak, Lukas Mueller, Matthias Peter, Ralph Schlapbach, Ruedi Aebersold 

Integrated Membrane Protein Analysis Using a Novel Combination of CY-DYE/BIOTIN Labeling 12.13-12.30 

Anissa Sidibe (King’s College, University of London, UNITED KINGDOM), Xiaoke Yin, Qingzhong Xiao, 

Anna Zampetaki, Qingbo Xu, Manuel Mayr 

11.00-12.30 S11 Phosphoproteomics room: Auditorium 

Chairpersons: Ole Jensen & Shabaz Mohammed 

11.00-11.30 Phosphoproteomics - Quo Vadis? Challenges and Trends in Protein Phosphorylation Analysis 

Ole Jensen (University of Southern Denmark, DENMARK) 

11.30-11.50 Optimization of Elution Conditions for Phosphopeptides Captured by Aliphatic Hydroxy Acid-Modified 

metal Oxide Chromatography (HAMMOC) 

Yutaka Kyono (Keio Univ. IAB, JAPAN), Naoyuki Sugiyama, Koshi Imami, Masaru Tomita, Yasushi Ishihama 

11.50-12.10 The Use of Phosphoproteomics to Discover Novel AMPK Substrates 

Nicholas Morrice (MRC Protein Phosphorylation Unit, UNITED KINGDOM), Franck Vandermoere, Kei Sakamoto 

12.10-12.30 Phosphoproteomic Analysis of Host Signaling Events Induced by Salmonella 

Lindsay D Rogers (The University of British Columbia, CANADA), Yuan Fang, Erin C Boyle, Leonard J Foster 

S14 Alternative Splicing & Protein Processing room: L 11.00-12.30 

Chairpersons: Kris Gevaert & Jeroen Demmers 

Systematic Protease Degradomics by Targeted Gel-Free Proteomics 11.00-11.30 

Kris Gevaert (Ghent University, BELGIUM), Petra Van Damme, Francis Impens, Veerle Vandenbussche, 

Kim Plasman, Kenny Helsens, Niklaas Colaert, Joël Vandekerckhove 

Multiplex System-Wide Discovery of Protease Substrates and Their Cleavage Sites 11.30-11.50 

Anna Prudova (University of British Columbia, CANADA), Ulrich auf dem Keller, Christopher Overall 

Alternative Splicing Detection in Large Scale Proteomics 11.50-12.10 

Alexandre Podtelejnikov (Proxeon A/S, DENMARK), Christian Ingrell, Morten Bern 

Dynamic Regulation of SUMO-2/3 Conjugates by the Ubiquitin-Proteasome System 12.10-12.30 

Alfred Vertegaal (Department of Molecular Cell Biology, Leiden University Medical Center, THE NETHERLANDS), 

Joost Schimmel, Katja Larsen, Ivan Matic, Martijn van Hagen, Jürgen Cox, Matthias Mann, Jens Andersen 

11.00-12.30 S12 Computational Approaches To Mine Proteomic Data room: Forum 

chairpersons: Pavel Pevzner & Anne-Claude Gavin 

11.00-11.30 MS-Dictionary: A New Approach to Peptide Identification 

Pavel Pevzner (University of California at San Diego, UNITED STATES), Sangtae Kim, Nitin Gupta, Nuno Bandeira 

11.30-11.50 A generic strategy for the comprehensive analysis of post-translation modifications 

Lukas Mueller (Institute of Molecular Systems Biology, SWITZERLAND), Clementine Klemm, 

Christine Carapito, Alex Schmidt, Bruno Domon, Ruedi Aebersold 

11.50-12.10 A tag chain method for identification of multiple post-translational modifications 

Seungjin Na (University of Seoul, KOREA), Eunok Paek, Jaeho Jeong, Kong-Joo Lee, Heejin Park 

12.10-12.30 Unbiased Identification of Post-Translational Modifications Using Novel Maxquant Algorithm 

Michael L. Nielsen (Max-Planck-Institute of Biochemistry, Department of Proteomics and Signal Transduction, 

GERMANY), Jürgen Cox, Tiziana Bonaldi, Michiel Vermeulen, Matthias Mann 

S15 Glycoproteomics room: N-N1-O1-O 11.00-12.30 

Chairpersons: Catherine E Costello & Peter Roepstorff 

Advances in Mass Spectrometry-Based Methods for Glycoprotein Analysis 11.00-11.30 

Catherine E Costello (Boston University School of Medicine, UNITED STATES), Marianna Budnik, Giuseppe Infusini, 

Yan Jiang, Elizabeth Palaima, Bo Xie, John F. Cipollo, Mark E. McComb, Peter B. O’Connor, Joseph Zaia 

Glycoproteomics: Applications For Stem Cell And Cancer Biomarkers 11.30-11.50 

Michael Pierce (Complex Carbohydrate Research Center and UGA Cancer Center, University of Georgia, 

UNITED STATES), S Dalton, K Moremen, M Tiemeyer, L Wells, R Orlando, K Abbott, G Alvarez-Manilla, W York 

Breast Milk Glycoproteome: A Defence Against Pathogenic Infection? 11.50-12.10 

Daniel Kolarich (Macquarie University, AUSTRALIA), Pia Hønnerup Jensen, Nicolle Packer 

Pilin Glycosylation, Regulated by Sll0899, is Required for Cyanobacterial Motility 12.10-12.30 

Young Hye Kim (Korea Basic Science Institute, KOREA), Jin Young Kim, Se-Young Kim, Jeong Hwa Lee, 

Ju Yeon Lee, Eun Sun JI, Young-Ho Chung, Jong Shin Yoo, Young Mok Park 

52 53



14.00-15.30 S16 Chemical Proteomics room: Auditorium 

chairpersons: Bernhard Kuster & Huib Ovaa 

14.00-14.30 Emerging Chemical Approaches to Studying the Proteome 

Bernhard Kuster (Technical University Munich, GERMANY) 

14.30-14.50 Selectivity Profiling of Lipid Kinase Inhibitors by Chemical Proteomics 

Thilo Werner (Cellzome AG, GERMANY), Dirk Eberhard, Giovanna Bergamini Moore, Yann Abraham, 

Andrew Cansfield, Kathryn Bell, Marcus Bantscheff, Gitte Neubauer 

14.50-15.10 Chemical Proteomics: Affinity Enrichment and Labelling of Metalloproteases 

Rainer Bischoff (University of Groningen, THE NETHERLANDS), Hermen Overkleeft, Henk Kauffman, 

Michiel Leeuwenburgh, Theo Klein, Paul Geurink 

15.10-15.30 Identification of Calmodulin as a Binding Protein of IHY-153, an Antiproliferative Small Molecule 

Hye Jin Jung (Yonsei University, KOREA), Joong Sup Shim, Jungchan Park, Hyun-Joon Ha, Jung-Ho Kim, 

Joong-Gon Kim, Ho Jeong Kwon 

S19 Proteomics And Epigenetics room: L 14.00-15.30 

Chairpersons: Donald Hunt & Marc Timmers 

Innovative Mass Spectrometry Technology for the Study of Chromatin Biology 14.00-14.30 

Donald Hunt (University of Virginia, UNITED STATES) 

A proteomic screen to decipher the histone code interactome by SILAC-based proteomics 14.30-14.50 

Michiel Vermeulen (Max Planck Institute of Biochemistry, GERMANY), Matthias Mann 

The Maturation of Histone Modifications after Chromatin Assembly 14.50-15.10 

Axel Imhof (Center of Integrated Protein Sciences and Adolf-Butenandt Institute, Ludwig-Maximilians 

University of Munich, GERMANY), Annette Scharf, Theresa Barth 

Screen for Differential Transcription Factor Binding at Single Nucleotide Polymorphisms 15.10-15.30 

Falk Butter (MPI of Biochemistry, GERMANY), Michiel Vermeulen, Matthias Mann 

14.00-15.30 S17 Kinase- Protein Substrate Networks room: Forum 

Chairpersons: Michael Snyder & Pim Pijnappel 

14.00-14.30 Dissecting Complex Phosphorylation Regulatory Networks Using Proteomics Technologies 

Michael Snyder (Yale University, UNITED STATES) 

14.30-14.50 Dynamic Changes in the ERK1 Interactome Determine Cell Fate Decisions 

Alex von Kriegsheim (Beatson Institute for Cancer Research, UNITED KINGDOM), Daniela Baiocchi, 

Willy Bienvenut, Andrew Pitt, Walter Kolch 

14.50-15.10 Identification of Plk1 Specific Phosphorylation Sites on Spindle Proteins 

Anna Santamaria (MPI of Biochemistry, Dept. of Cell Biology, GERMANY), Bin Wang, Rainer Malik, 

Sabine Elowe, Erich Nigg, Roman Koerner 

15.10-15.30 Casting the Net for Kinases: Systematic Discovery of In Vivo Phosphorylation Networks 

Rune Linding (Institute of Cancer Research, UNITED KINGDOM) 

S20 Proteomics Of The Nervous Systems room: N-N1-O1-O 14.00-15.30 

Chairperson: Jyoti Choudhary 

Synapse Proteomics 14.00-14.30 

Jyoti Choudhary (Wellcome Trust Sanger Institute, UNITED KINGDOM) 

Quantitative Synaptic Proteomics in a Mouse Model for the Fragile X Syndrome 14.30-14.50 

Ka wan Li (Department of Molecular and Cellular Neurobiology, VU University Amsterdam, THE NETHERLANDS), 

Patricia Klemmer, Oleg I. Klychnikov, Carl D. Holmgren, Huibert D. Mansvelder, August B. Smit 

The Effects of UBB+1 on the Brain Proteome in a Transgenic Mouse Model 14.50-15.10 

Caroline May (Medizinisches-Proteom Center, GERMANY), Thomas Schulenborg, Fred W. van Leeuwen, 

Martin Irmler, Rohan de Silva, Walter Schubert, Johannes Beckers, Helmut E. Meyer, Katrin Marcus 

The Glioma Cell Surface Signal Transduction Network 15.10-15.30 

Thomas Bock (NCCR Neuro Center for Proteomics, Institute of Molecular Systems Biology, Swiss Federal Institute of 

Technology (ETH), SWITZERLAND), Andreas Hofmann, Damaris Bausch-Fluck, Bernd Wollscheid 

14.00-15.30 S18 Proteomics Of Macromolecular Complexes Room: A 

Chairperson: Brian Chait 

14.00-14.30 Proteomic Approaches for Analyzing Complex Biological Machines 

Brian Chait (The Rockefeller University, University of California, UNITED STATES), F Alber, S Dokudovskaya, 

L Veenhoff, W Zhang, D Devos, O Karni-Schmidt, A Suprapto, R Williams, A Sali, MP Rout 

14.30-14.50 Novel Chromatin Immunopurification (mCHIP) Approaches for the Mapping of Protein Interactions. 

Daniel Figeys (OISB/University of Ottawa, CANADA), Mohamed Abu-Farha, Jean-Philippe Lambert 

14.50-15.10 An Integrated Experimental Workflow to Increase Throughput and Data Robustness for Global Analysis 

of Human Protein Interaction Networks 

Timo Glatter (ETH Zürich, SWITZERLAND) 

Plenary 7 The Social Network Of A Cell: Room: Auditorium 16.00-16.45 

dynamic Protein Interactions 

Anne-Claude Gavin (EMBL Heidelberg, GERMANY) 

Chairperson: Richard Simpson 

Plenary 8 SIGNALING NUTRIENT limitation room: Auditorium 16.45-17.30 

Erin O’Shea (Harvard University, Howard Hughes Medical Institute, UNITED STATES) 

chairperson: John Yates 

15.10-15.30 Characterizing a Minimal Molecular Machinery 

Sebastian Kühner (EMBL Heidelberg, GERMANY) 

54 55

Publishing in Proteomics 

20.00 - 22.00 

Chair: Peipei Ping 

Program to be announced. 

evening sessions 

Challenges/Solutions for Implementing Proteomics into 

Clinical Practice - An Open Forum Discussion 

20.00 - 22.00 

Moderator: Salvatore Sechi, NIDDK, National Institutes of Health, USA 

room: A 

room: B 

Leaders in the field including Denis Hochstrasser, Geneva University and University 

Hospital, Daniel W. Chan, Johns Hopkins Medical Institutions, and Christer Wingren, 

Lund University will open the discussion addressing the following key questions: 

What are the regulatory issues and barriers in the approval/use of biomarkers 

as diagnostic and what can we do about it? 

What is needed for moving proteomics assays into clinical practice? 

How can we foster interaction/collaboration/partnership between clinicians and 

basic scientists and the private sector? 

Today most diagnostic assays use a single analyte as biomarker or surrogate 

endpoint what are the barrier for implementing multi-analyte diagnostic? 

Regulatory agencies, private companies, funding agencies, clinicians and proteomics 

experts are invited to participate in the discussion and/or present their perspective 

in a concise way (no more than 1 slide / 3-5 minutes). 

Whether a test is clearly described; 

If the true presence or absence of disease can be established for all individuals; 

Whether the spectrum of patients with and without disease is adequate; 

Whether the assessment of test and disease status is conducted in an unbiased 

manner; and 

If the test performance is summarized by the important terms of sensitivity and 

specificity. 

Speakers: 

Concept of Validation: Nuts and Bolts of Good Proteomic Study 

Sudhir Srivstava, National Cancer Institute 

Biomarkers and FDA Regulation of In Vitro Diagnostic Devices 

Robert Becker, Food and Drug Administration 

Mass Spectrometry-based Platforms for Biomarker Discovery and Verification 

Daniel Liebler, Vanderbilt School of Medicine 

Reproducibility Testing of Gel-based Proteomics 

Hans Voshol, Novartis Institutes for Biomedical Research 

Validation in the eyes of a Basic Scientist 

John Bergeron 

Validation in the eyes of Clinical Scientist 


Summary 

Sudhir Srivastava 

Workshop on Proteomics Validation 

room: L 

20.00 - 22.30 

What Does Proteomics Validation Mean to the Users, Regulators and Public Health 

Professionals? 

Chair: Sudhir Srivastava 

Objective: The term ‘validation’ is grossly misused. It means different things to 

different people, and often not tied with the requirements that are expected by 

the regulatory and clinical community. The term has taken a new meaning in light of 

high throughput, high dimensional technologies, like proteomics where the number of 

features (biomarkers) are much more higher than the number of samples and this 

often leads to the over-fitting of the data. This has raised an alarm in the minds 

of regulators and clinicians due the potentially high rates of false positive cases. 

This symposium will invite clinicians, regulators and basic scientists to discuss their 

experience and provide guidance to the proteomic community. The symposium will build 

on the concept of validation asks: 

56 57

Making the most 

of genomics 

The Netherlands Genomics Initiative (NGI) aims to get the 

best from genomics by providing excellence in genomics. 

NGI was established by the Dutch government in 2002 and 

is now entering its second phase: 2008-2012. The overall 

objective of NGI is to ensure that society and economy 

benefit from the breakthroughs enabled by genomics in 

important fields like health, agro-food, sustainability, 

enabling technologies and society. 

Forensic 

Genomics Consortium 

Netherlands 

Netherlands Consortium 

for Systems Biology 

Celiac Disease Consortium 

Netherlands 

Metabolomics Centre 

Netherlands Consortium 

for Healthy Ageing 

Centre for Medical 

Systems Biology 

Kluyver Centre for Genomics 

of Industrial Fermentation 

16 NGI Genomics Centres in the Netherlands 

health | agro-food | sustainability | enabling technologies | society 

VIRGO Consortium 

Ecogenomics 

Consortium 

Cancer Genomics Centre 

Nutrigenomics 

Consortium 

Centre for BioSystems 

Genomics 

Netherlands 

Bioinformatics Centre 

Centre for Society 

and Genomics 

Netherlands 

Toxicogenomics Centre 

Enabling Technologies 

Tools to analyse, probe 

and explore 

Unravelling the complex network of biological 

processes that constitute life in all its forms – the 

core of modern life sciences research – requires 

not only an inquisitive mindset, but also a battery 

of high-grade technology platforms. 

NGI enables probing into the fascinating world 

of biology by initiating, organising and funding 

a number of technology centres that are 

accessible to the Dutch and international life 

sciences community. These centres work on their 

own research programmes, develop and 

disseminate new technologies, tools and 

methods, offer technical support and serve as 

training centres for scientists and technicians. 

Bioinformatics, proteomics, metabolomics, 

toxicogenomics and systems biology are the focus 

of NGI’s efforts in technology development. 

Meet us at 

the HUPO 

Exhibition 

Booth 9 

P.O. Box 93035 – 2509 A A The Hague – The Netherlands | T +31 70 344 0672 | F +31 70 344 0632 | E info@genomics.nl 

Be part of the thriving NGI genomics community | visit www.genomics.nl /jobs 


Room M Room B Room CD Room EF 

Room 

N-N1-O1-O 


Room 

Auditorium 

Forum Ground 

Floor 

location 

time 

Speaker Ready 

Room 


Information 

whole day 



Corporate Workshop GE 

Healthcare 



07.00 - 07.50 

08.00 - 08.45 Sung-Hou Kim 

08.45 - 09.30 John Yates 


S25 

Structural 

Proteomics 

S24 

Assembling the parts: 

Whole Cell Modelling / 

Biomarkers 1 

S23 

Array Based 

Proteomics 

S22 

Quantification 

S21 

Integration and 

storage of 

proteomics data 

11.00 - 12.30 


Invitrogen 


Bio-Rad Laboratories 


Waters 


S30 

Proteome biology of 

infectous diseases 

S29 

Single cell imaging/ 

HUPO Young 

Investigator Awards 

S28 

Biomarkers 2 

S27 

Cancer related signaling 

S26 

Stem cell 

proteome biology 

14.00 - 15.30 


HUPO 2008 

Award Session 

16.00 - 17.30 

Announcement HUPO 

2009 & Closing 

17.30 - 18.00 

19.00 - 23.00 Congress Dinner 



58 59

Plenary Speakers Wednesday 

Sung-Hou Kim 

John Yates 

BIOGRAPHY 

Sung-Hou Kim is a professor in the Department of Chemistry, University of California, 

Berkeley, CA (UCB), and a Senior Faculty Scientist at Lawrence Berkeley National 

Laboratory (LBNL), Berkeley, CA. He currently serves as the Director of the Berkeley 

Structural Genomics Center, LBNL, and the Head of the Structural Biology Department, 

Physical Biosciences Division, LBNL. He is a member of the U. S. National Academy of 

Sciences, and a fellow of the American Academy of Arts and Sciences. His research 

interest has been in Structural Biology, Structural Genomics, Computational Genomics, 

and Drug Discovery. 

Abstract 

Demography and Phylogeny of Structural and Sequence Proteomes 

S.-H. Kim, S.-R. Jun, G.A. Wu, and G.E. Sims, Univ. of California and Lawrence Berkeley 

National Laboratory, Berkeley CA 94720 USA 

A large number of 3-D structures of proteins became available by the recent 

development of structure determination technology during the last two decades. There 

are a few “minimal organisms,” for which over 95% of the soluble, globular proteins 

may now be assigned their structural folds. Near-complete structural proteome of one 

minimal organism is analyzed as they relate to protein functions and fold usage among 

functional categories. The structural proteome of the organism is then “mapped” 

on the protein structure universe, a collection of all known protein structures. This 

“mapping” reveals features that may be interpretable in terms of evolution of protein 

structure and function. 

Similarly, a large number of whole genome sequences and individual gene sequences 

became available by the explosive development of sequencing technology during the 

last two decades. Currently, most comparison methods rely on the multiple sequence 

alignment of one or more common genes among the population examined, and do not 

utilize the whole genome sequences. We have developed alignment-free methods to 

compare and organize whole genome sequences (coding and non-coding regions) or 

whole genome coding sequences (sequence proteomes). The methods allow us to map 

“demography” of organisms represented by whole genome sequences or whole genome 

coding region sequences. Such mapping can provide a global view of distribution and 

relationship among the demographic groups of organisms, and possibly their evolution. 

Funded by NIH (P50 GM62412) 

BIOGRAPHY 

John Yates received his Ph.D. in Chemistry at the University of Virginia under Professor 

Donald Hun and is now a Professor in the Department of Chemical Physiology at The 

Scripps Research Institute. His research interests include development of integrated 

methods for tandem mass spectrometry analysis of protein mixtures, bioinformatics 

using mass spectrometry data, and proteomics. 

Abstract 

Driving Biological Discovery Using Quantitative Mass Spectrometry 

John R. Yates 

Department of Chemical Physiology, 10550 North Torrey Pines Road, SR11, The Scripps 

Research Institute, LaJolla, CA 92037 USA 

A component to understanding biological processes involves identifying the proteins 

expressed in cells as well as their modifications and the dynamics of processes. Several 

major technologies, but especially mass spectrometry, have benefited from large-scale 

genome sequencing of organisms. The sequence data produced by these efforts can 

be used to interpret mass spectrometry data of proteins and thus enables rapid and 

large-scale analysis of protein data from experiments. Advances in multi-dimensional 

separations as well as mass spectrometry have improved the scale of experiments 

for protein identification. This has improved the analysis of protein complexes, and 

more complicated protein mixtures. Quantitative mass spectrometry can be used to 

study biological processes such as development or the effects of gene mutations on 

pathways. Methods to improve the sample preparation, separation of peptides and 

analysis of the data will be described as well applications of shotgun proteomics to the 

study biological processes. 

60 61



8.00-8.45 Plenary 9 Demography and Phylogeny of Structural Room: Auditorium 

and Sequence Proteomes 

Sung-Hou Kim (University of California Berkeley, Lawrence Berkeley National 

laboratory, UNITED STATES), Se-Ran Jun, G Albert Wu, Gregory E. Sims 

Chairperson: Brian Chait 

8.45-9.30 Plenary 10 Driving Biological Discovery Using Quantitative Room: Auditorium 


John Yates (The Scripps Research Institute, UNITED STATES) 

Chairperson: Don Hunt 

S23 Array Based Proteomics room: A 11.00-12.30 

Chairperson: Joshua LaBaer 

Functional Proteomics for Biomarker and Target Discovery 11.00-11.30 

Joshua LaBaer (Harvard Medical School, UNITED STATES) 

Proteome Microarray Analysis of the Antibody Response to Infectious Diseases 11.30-11.50 

Robert Ulrich (Army Medical Research Institute of Infectious Diseases, UNITED STATES), Sarah Keasey, 

James Meagan, Alexander Tikhonov, Barry Schweitzer 

PDMS-Based Protein Chips for Proteomics 11.50-12.10 

Wang-Chou Sung (National Cheng kung University, TAIWAN), Makamba Honest, Shu-Hui Chen 

Antibody Microarrays – A Way to Define Predictive Biomarker Signatures in Cancer 12.10-12.30 

Carl Borrebaeck (Lund University, SWEDEN) 

11.00-12.30 S21 Integration And Storage Of Proteomics Data room: Auditorium 

Chairpersons: Rolf Apweiler & Bas van Breukelen 

11.00-11.30 Bioinformatics Infrastructure for Proteomics: Status of Database and Standards Development 

Rolf Apweiler (EMBL-EBI, UNITED KINGDOM) 

11.30-11.50 Design and Implementations of the New PSI Mass Spectrometer Output File Standard: mzML 1.0 

Eric W. Deutsch (Institute for Systems Biology, United States), Lennart Martens, Joshua Tasman, Jim 

Shofstahl, Darren Kessner, Matthew Chambers, Fredrik Levander, Puneet Souda, Luisa Montecchi-Palazzi, 

Henning Hermjakob, Pierre Alain Binz 

11.50-12.10 The PRIDE Database: Better, Faster, Stronger 

Richard Cote (European Bioinformatics Institute, UNITED KINGDOM), Phil Jones, Lennart Martens, 

Juan Antonio Vizcaino, Henning Hermjakob 

12.10-12.30 ProHits - A Complete LIMS System For Functional Proteomics 

Frank Liu (Centre for Systems Biology, Samuel Lunenfeld Research Institute, CANADA), Jian Ping Zhang, 

Brett Larsen, Ashton Breitkreutz, Zhen-Yuan Lin, Jim Woodgett, Tony Pawson, Jeff Wrana, 

Anne-Claude Gingras, Mike Tyers 

S24 Assembling The Parts: Whole Cell Modelling + Biomarkers 1 room: L 11.00-12.30 

Chairperson: Rob Russell 

New Peptides Mediating Interaction Networks: From Two-hybrid Networks to 3D Structure 11.00-11.30 

Rob Russell (EMBL, GERMANY) 

Formlin-fixed Paraffin Embedded (FFPE) Clinical Proteome Initiative of Lung Cancer 11.30-11.50 

Toshihide Nishimura (Tokyo Medical University, JAPAN), Masaharu Nomura, Sayaka Mikami, Hiroko Endo, 

Yasuhiko Bando, Ryotaro Nishiyama, Kiyonaga Fujii, Sumie Ando, Hiroko Hamazaki, Harubumi Kato 

Naturally Occurring Urinary Peptides for Differential Diagnosis of Chronic Kedney Disease 12.10-12.30 

Harald Mischak (Mosaiques-Diagnostics, GERMANY), Kasper Rossing, Jan Novak, Bruce A. Julian, 

Moritz Frommberger, Eric Schiffer, Philippe Schmitt-Kopplin 

Oligosaccharide Microarrays and Prospects for Deciphering the Glyco-code 11.50-12.10 

Ten Feizi (Imperial College, united kingdom) 

11.00-12.30 S22 Quantification Room: Forum 

Chairpersons: Shu-Hui Chen & Chris de Koster 

11.00-11.30 Quantitative Nano-Proteomics Using Stable Isotope Dimethyl Labeling - Resolving Protein Complexes 

related to Estrogen Action 

Shu-Hui Chen (National Cheng Kung University, TAIWAN) 

11.30-11.50 Triplex Stable Isotope Dimethyl Labeling and its Application in Chemical Proteomics 

Paul Boersema (Utrecht University, THE NETHERLANDS), Thin Thin Aye, Toon van Veen, Albert Heck, 


11.50-12.10 MRM Analysis of Tumor Homogenates for Absolute Quantification of Potential Biomarkers 

Leroi DeSouza (CRMS York University, CANADA), Marjorie Minkoff, Terence Colgan, Alexander Romaschin, 

KW Michael Siu 

12.10-12.30 Proteome-wide Accurate Label-free Quantitation of Mammalian Cells 

Juergen Cox (Max Planck Institute of Biochemistry, GERMANY), Christian Luber, Matthias Mann 

S25 Structural Proteomics room: N-N1-O1-O 11.00-12.30 

Chairpersons: Cheryl Arrowsmith & Rolf Boelens 

Integrating Structural Genomics and Chemical Genomics for Biology and Medicine 11.00-11.30 

Cheryl Arrowsmith (Structural Genomics Consortium, CANADA) 

Visual Proteomics of the Human Pathogen Leptospira Interrogans 11.30-11.50 

Martin Beck (Swiss Federal Institute of Technology, SWITZERLAND), Johan Malmstroem, Vinzenz Lange, 

Alexander Schmidt, Eric Deutsch, Ruedi Aebersold 

Interactome and Interface Protocol - 2 nd Generation Strategy for Topology Mapping of Protein Complexes 11.50-12.10 

Gerold Schmitt-Ulms (University of Toronto, CANADA) 

Intramolecular Interactions Within Voltage/Ca2+ Gated K+ Channels: Structure/Function Implications 12.10-12.30 

Sarah Warburton (University of California Los Angeles, UNITED STATES), Taleh Yusifov, Thomas Vondriska, 

Riccardo Olcese 

62 63



14.00-15.30 S26 Stem Cell Proteome Biology room: Auditorium 

Chairperson: Jeroen Krijgsveld 

14.00-14.30 Quantitative Phospho-proteomics of Human Embryonic Stem Cell Differentiation 

Jeroen Krijgsveld (Utrecht University, THE NETHERLANDS), Javier Muñoz, Dennis Van Hoof, Martijn Pinkse, 

Stefan Braam, Bas van Breukelen, Christine Mummery, Albert Heck 

14.30-14.50 Tracking Patterns of Post-translational Modification on Histone H4 During Differentiation of Human ES Cells 

Justin Brumbaugh (University of Wisconsin, UNITED STATES) 

14.50-15.10 Metabolic Labeling and Click Chemistry Detection of Stem Cell Markers 

Brian Agnew (Molecular Probes-Invitrogen, UNITED STATES), Courtenay Hart, Mahbod Hajivandi, 

Marshall Pope, Lucas Chase 

15.10-15.30 Quantitative Analysis of the Mesenchymal Stem Cell Secretome during Osteogenesis 

Lars Kristensen (University of Southern Denmark, DENMARK), Moustapha Kassem, Jens Andersen 

14.00-15.30 S27 Cancer Related Signaling room: Forum 

Chairpersons: Connie Jimenez & Monique Slijper 

14.00-14.30 Proteomics Targeted to Sub-cellular Compartments and Secretomes for Discovery of Signaling 

pathways in Colorectal Cancer 

Connie Jimenez (VU University Medical Center, THE NETHERLANDS), Jakob Albrethsen, Remond Fijneman, 

Jaco Knol, Sander Piersma, Meike de Wit, Sandra Mongera, Beatriz Carvalho, Gerrit Meijer 

14.30-14.50 Addressing the Angiogenic Switch by Studying Tumor-host Interactions in a Model of Glioma 

Uros Rajcevic (NorLux Neuro-oncology, CRP-Sante, LUXEMBOURG), Jaco C. Knol, Maarten Loos, KaWan Li, 

Oleg Klychnikov, Rolf Bjerkvig, Thang V. Pham, Kjell Petersen, Connie R. Jimenez, Simone P. Niclou 

14.50-15.10 Multiplex Substrate Degradomics of Matrix Metalloproteinases in Breast Carcinogenesis 

Ulrich auf dem Keller (Centre for Blood Research, University of British Columbia, CANADA), Anna Prudova, 

Yuanmei Lou, Shoukat Dedhar, Christopher Overall 

15.10-15.30 Phosphoproteomics Analysis Reveals Divergent Signaling for Oncogenic FLT3 Mutants 

Yi Zhang (Dana-Farber Cancer Institute, UNITED STATES), Manor Askenazi, Chance Luckey, Jarrod Marto 

14.00-15.30 S28 Biomarkers 2 Room: A 

Chairperson: Richard Simpson 

14.00-14.30 Secretome-based Proteomic Strategies for Uncovering New Biomarkers for Colorectal Cancer 

Richard Simpson (Ludwig Institute for Cancer Research & Walter and Eliza Hall Institute of Medical Research, 

AUSTRALIA), Justin Lim, Eugene Kapp, Bow Tauro, Thomas Barnes, Oliver Bernhard, Robert Moritz 

14.30-14.50 Cell-based Proteome Analysis: The First Stage in the Pipeline for Biomarker Discovery 

Barbara Sitek (Medizinisches Proteom-Center, Ruhr Universität Bochum, GERMANY), Gereon Poschmann, 

Corinna Henkel, Bence Sipos, Oliver Vonend, Helmut E. Meyer, Kai Stühler 

14.50-15.10 The Use of Plasma Proteomics to Study Disease Pathogenesis 

William Hancock (Northeastern University, UNITED STATES), Marina Hincapie, Majlinda Kullolli, 

Tatiana Plavina 

15.10-15.30 Shotgun Proteomics of Human Gastric Juice 

Maxey Ching Ming Chung (Department of Biochemistry, Yong Loo Lin School of Medicine, Department of 

Biological Sciences, Faculty of Science, National University of Singapore, SINGAPORE), Cynthia R.M.Y. Liang, 

Qingsong Lin, Sandra Tan, Teck Kwang Lim, Yi Liu, Khay Guan Yeoh, Jimmy So, Choy Leong Hew 

S29 Single Cell Imaging + HUPO YIP room: L 14.00-15.30 

Chairpersons: Philippe Bastiaens & John Yates 

Imaging Reaction Dynamics For Cellular Systems Biology 14.00-14.30 

Philippe Bastiaens (MPI for Molecular Physiology, Dept. of Systemic Cell Biology, GERMANY) 

A Systems View of the Cell Cycle by Parallel Quantitation of Proteome and Phosphoproteome 14.30-14.50 

Jesper V. Olsen (Max-Planck-Institute for Biochemistry, GERMANY), Michiel Vermeulen, Anna Santamaria, 

Chanchal Kumar, Florian Gnad, Jürgen Cox, Erich Nigg, Matthias Mann 

Exploring Different Enzymes to Allow Facile Peptide Sequencing by ETD 14.50-15.10 

Shabaz Mohammed (Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Center for Biomolecular 

Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, THE NETHERLANDS), 

Nadia Taouatas, Kristina Lorenzen, Madalina Drugan, Alessandro Vannini, Patrick Cramer, Albert Heck 

New Targets of Snake Venom Metalloproteinases Revealed by Proteomic Approaches 15.10-15.30 

Adriana Paes Leme (Instituto Butantan, BRAZIL), Marina Assakura, Antonio Camargo, Nicholas Sherman, 

Jay Fox, Solange Serrano 

S30 Proteome Biology Of Infectious Diseases room: N-N1-O1-O 14.00-15.30 

Chairpersons: Young-Ki Paik & Paul Hensbergen 

Proteome Biology of Candida albicans Infection and Action Mechanism of Antifungal Agents 14.00-14.10 

Young-Ki Paik (Yonsei Proteome Research Center, Yonsei University, KOREA), Hyoung-Joo Lee, 

Jong Shin Yoo, Ki-Young Kim, Yu-Kyong Shin 

Proteomics Applied to the Study of Hepatitis C Virus Pathogenesis 14.10-14.30 

Romain Parent (Fred Hutchinson Cancer Research Center, UNITED STATES), Sufen Shang, Neha Lohia, 

Laura Beretta 

Proteolytic Processing of the Campylobacter Adherence Factor (CadF) in Campylobacter Jejuni 14.30-14.50 

Stuart Cordwell (University of Sydney, AUSTRALIA), Nichollas Scott 

Proteomics of Influenza Virus and Vaccine 14.50-15.10 

Michail Alterman (FDA/CBER/OCTGT/TVBB, UNITED STATES), Melkamu Getie-Kebtie, Maryna Eichelberger 

Phosphoproteome of Primary Human Host Cells Infected with Yersinia pestis 15.10-15.30 

Ramin Hakami (USAMRIID, UNITED STATES) 

Eupa and HUPO Awards session room: Auditorium 16.00-17.30 

Introduction by Albert Heck 16.00-16.05 

Amsterdam Young Scientist Award 16.05-16.15 

Awardee: To Be Announced (TBA) 

EuPA Senior Scientist Award in Proteomic Sciences 16.15-16.20 

Elsevier representative: Adriaan Klinkenberg · Eupa representative: EuPA President · Awardee: Stellan Hjerten 

Announcement Eupa Ph.D. Award 16.20-16.25 

Elsevier representative: Adriaan Klinkenberg · Eupa YIP representative: Concha Gil 

Awardees: TBA, selected after their presentation 

HUPO YIP Prize announcement 16.25-16.30 

HUPO representative: Pierre Legrain · HUPO YIP representative: John Yates 

Awardees: Jesper Olsen, Shabaz Mohammed, Adriana Paes Leme 

HUPO Discovery in Proteomic Sciences award 16.30-16.35 

HUPO representative: Pierre Legrain · Awardee: Catherine Costello 

HUPO Distinguished Service Award 16.35-16.40 

HUPO representative: Pierre Legrain and Rolf Apweiler · Awardee: Richard Simpson 

HUPO Distinguished Achievement Award 16.40-17.00 

JPR Representative: TBA · HUPO representative: Pierre Legrain and Rolf Apweiler · Awardee: Denis Hochstrasser 

HUPO Distinguished Achievement Award 17.00-17.30 

JPR Representative: TBA · HUPO representative: Pierre Legrain and Rolf Apweiler · Awardee: Matthias Mann 

64 65

Poster topics 


wednesday 20 August 

Topics 

Poster Numbers 

Topics 


Biomarkers I 

P-MON-001 - P-MON-126 

Array Based Proteomics 

P-WED-001 - P-WED-028 

Innovation In Peptide & Protein Seperation 

Technologies 

Molecular Mass Imaging 

Organelle and biological membranes 

Proteomics 

Quantification I 

Reagents for proteomics 

Standards for Clinical Proteomics 

Stem cell proteome biology 

Structural Proteomics 

P-MON-127 - P-MON-186 

P-MON-187 - P-MON-204 

P-MON-205 - P-MON-267 

P-MON-268 - P-MON-303 

P-MON-304 - P-MON-318 

P-MON-319 - P-MON-330 

P-MON-331 - P-MON-353 

P-MON-354 - P-MON-370 

Biomarkers III 

Cardiovascular Proteome Biology 

Integration and storage of proteomics data 

Kinase-protein substrate networks 

Proteome biology of infectious diseases 

Proteomics and epigenetics 

Proteomics of the nervous systems 

Quantification II 

Other 

P-WED-029 - P-WED-101 

P-WED-102 - P-WED-143 

P-WED-144 - P-WED-166 

P-WED-167 - P-WED-171 

P-WED-172 - P-WED-208 

P-WED-209 - P-WED-217 

P-WED-218 - P-WED-251 

P-WED-252 - P-WED-291 

P-WED-292 - P-WED-355 


Topics 

Alternative splicing & protein processing 

Biomarkers II 


P-TUE-001 - P-TUE-014 

P-TUE-015 - P-TUE-040 

C. elegans and Drosophila P-TUE-041 - P-TUE-048 

Cancer related signaling 

Chemical Proteomics 

Computational approaches to mine 

proteomic data 


Mass Spectrometric Innovations 


Plant proteomics 

Proteomics of Macromolecular Complexes 

Yeast proteomics; sparks for new biology 

P-TUE-049 - P-TUE-110 

P-TUE-111 - P-TUE-135 

P-TUE-136 - P-TUE-193 

P-TUE-194 - P-TUE-225 

P-TUE-226 - P-TUE-250 

P-TUE-251 - P-TUE-306 

P-TUE-307 - P-TUE-322 

P-TUE-323 - P-TUE-362 

P-TUE-363 - P-TUE-370 

66 67

Poster Listing 

Monday 18 august 

Biomarkers I 

P-MON-001 

P-MON-002 

P-MON-003 

P-MON-004 

Targeting Serum Glycoprotein Cancer Biomarkers With Click Chemistry 

Courtenay Hart (Molecular Probes-Invitrogen, UNITED STATES), Brian Agnew, 

Tamara Nyberg, Mahbod Hajivandi, Marshall Pope, Rajkumar Lakshmanaswamy 

Glycoproteome Analysis In Human Plasma Using Multi-Lectin Affinity Column And 

Lc-Ms/Ms For The Discovery Of Potential Diabetic Nephropathy Biomarkers 

Jung-Mo Ahn (Department of Biochemistry, School of Dentistry Kyungpook National 

University, KOREA), Byung-kyu Kim, Ji-hyun Lee, Hye-sim Cho, In-Kyu Lee, Je-Yoel Cho 

Evaluation Of Correlation Between Cyfra 21-1 And Cea With Telomerase Activity 

In Lung Cancer Patients And Healthy Controls 

Behrang Alani (Department of Physiology and Pharmacology, School of Medicine, 

Kashan University, IRAN), Khalil Ansarin, Massood Nazemieh, Mahdi Noureddini, 

Abbas Mohajeri, Amir Reza Amir Hejri 

Comparative Proteomic Study Of The Human Erythrocyte ‘Ghost’ Microsomal 

Fraction In Copd 

Bruno Alexandre (Laboratorio Proteomica, Dept. Genetica Humana INSA, I.P., 

PORTUGAL / Laboratory of Proteomics and Analytical Technologies, SAIC-Frederick 

Inc., National Cancer Institute at Frederick, USA), Nuno Charro, Antonio Bugalho de 

Almeida, Timothy Veenstra, Josip Blonder, Deborah Penque 

P-MON-011 

P-MON-012 

P-MON-013 

P-MON-014 

P-MON-015 

P-MON-016 

Identification Of Protein Expressed By Aortic Stenosis Valves In The Search For 

Novel Biomarkers 

Felix Gil-Dones (Laboratorio de Fisiopatología Vascular. Hospital Nacional de Parapléjicos. 

SESCAM., SPAIN), Tatiana Martin-Rojas, Natacha Diaz-Prieto, Luis F. Lopez-Almodovar, 

Fernando de la Cuesta, Gloria Alvarez-llamas, Fernando Vivanco, Luis R. Padial, 

Maria G. Barderas 

Biomarkers For Tse Disease:- Seldi-Tof Approach 

Janice Barr (Roslin Institute / NPU, UNITED KINGDOM), Michael Watson, Nathan 

Harris, James W. Ironside, Mark W. Head, Rona Barron 

A Proteomic Approach To The Identification Of Stress Biomarkers For Bovine 

And Porcine Livestock 

Anna Bassols (Universitat Autonoma de Barcelona, SPAIN), Anna Marco, Yolanda Saco, 

Jose Luis Ruiz de la Torre, Alex Bach 

Development Of Specific Silicon Chips And Magnetic Nanobeads For Low And No 

Invasive Brain “Micro-Nanoproteomic” 

François Berger (INSERM U 836 Brain Nanomedicine Group, FRANCE), Ali Bouamrani, 

Affif zacaria, Claire Ramus, David Ratel, Maryline Cosnier, Patrice Caillat, Stephan Chabardes 

Ranking Of Soluble-Secreted Proteins (Rssp): A Biomarker Strategy For Colon Cancer 

Oliver Bernhard (Ludwig Institute for Cancer Research / The Walter and Eliza Hall 

Institute, AUSTRALIA), Richard Simpson 

Prenatal Bisphenol - A Exposure Alters The Mammary Gland Proteome In 

Prepubertal And Adult Rats 

Angela Betancourt (University of Alabama at Birmingham, UNITED STATES), Coral 

Lamartiniere 

P-MON-005 

P-MON-006 

P-MON-007 

P-MON-008 

P-MON-009 

Biomarkers For Hypertension - Relationship Between Body Fluids And Tissue 

Heather Allingham (Glasgow University, UNITED KINGDOM), Richard Goodwin, Martin 

McBride, Carsten Baessrmann, Markus Lubeck, Andrew Pitt 

Prohibitin Isoforms In Colorectal Cancer: A Proteomic Study 

Paula Álvarez Chaver (Universidad De Vigo, Spain), Francisco Javier Rodríguez 

Berrocal, María Páez De La Cadena, Ana María Rodríguez Piñeiro, Vicenta Soledad 

Martínez Zorzano 

Proteins Potentially Involved In F508del-Cftr Trafficking Restoration Process 

Patricia Alves (Laboratorio de Proteomica, Dept. de Genética Humana, INSA-IP / 

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, PORTUGAL), 

Ana Coelho, Francisco Couto, Paulo Nogueira, Deborah Penque 

Effect Of Lipid Peroxidation On Proteome Of The Hela Cell Line 

Sandro Argüelles Castilla (Dpto Bioquímica, Facultad de Farmacia-Universidad de 

Sevilla, SPAIN), Alberto Machado, Antonio Ayala 

Comparison Of Protein Profiles With Gene Expression Data To Select Biomarker 

Candidates For Estrogen Receptor Negative Breast Cancer 

Ji-Yeon Bae (Cancer Research Institute, Seoul National University College of 

Medicine, KOREA), Jong Won Lee, Wonshik Han, Jae Kyo Yi, Eun-Mi Jeong, Dong Hyun 

Kim, Cheolju Lee, Myeong-Hee Yu, Dong-Young Noh 

P-MON-017 

P-MON-018 

P-MON-019 

P-MON-020 

P-MON-021 

P-MON-022 

Comparison Of Cerebrospinal Fluid Proteins In Igg Fractions From Normal And 

Multiple Sclerosis Patients 

Natascha Helena Beyer (Statens Serum Institut, DENMARK / University of Victoria 

Genome BC Proteomics Centre, CANADA), Darryl Hardie, Leanne Britt Ohlund, 

Jette Lautrup Frederiksen, Christoph H. Borchers, Niels H.H. Heegaard 

Analysis Of Human Follicular Fluid Proteins By Isoelectric Focusing Fractionation 

Coupled To Mass Spectrometry 

Karel Bezstarosti (Erasmus MC, THE NETHERLANDS), Regine Steegers-Theunissen, 

Jeroen Demmers 

Withdrawn 

Proteins In Exhaled Breath Condensate: Identification And Pattern 

Karolien Bloemen (Flemish Institute for Technological Research (VITO), Environmental 

Toxicology, BELGIUM), Erwin Witters, Jef Hooyberghs, Kristine Desager, Greet Schoeters 

Comparative Proteomic Analysis Of Human Lung Cancer 

Butt Kwok Chu (Department of Applied Biology and Chemical Technology, The Hong Kong 

Polytechnic University, CHINA), CS Cho, SK Au, Leung Woon Fong, Zu Hai Long, Lo 

Chun Lap 

Withdrawn 

P-MON-010 

Overexpressed Proteins In Follicular Fluid From Infertile Patients Undergoing Ivf 

Therapy 

Kwang-Hyun Baek (Pochon CHA University, KOREA), Yong-Soo Kim, Myung-Sun Kim, 

Bum-Chae Choi, Sang-Jin Song, Dong-Hyun Cha 

P-MON-023 

P-MON-024 

Withdrawn 

Comprehensive Proteomic Analysis Of The Endometrial Fluid Aspirate 

Juan Casado-Vela (CICBiogune. Proteomics Unit. Technology Park of Bizkaia, SPAIN), 

Eva Rodriguez-Suarez, Juan Antonio García-Velasco, Roberto Matorras, Sandra 

González, Amagoia Ametzazurra, Daniel Nagore, Jose M. Mato, Felix Elortza 

68 69

P-MON-025 

Quantitative Analysis Of Malignant Pleural Mesothelioma Cell Surface Proteins 

Ferdinando Cerciello (Institute for Molecular Systems Biology, ETH Zurich, 

SWITZERLAND), Bernd Wollscheid, Damaris Bausch-Fluck, Colette Bigosch, Reto Ossola, 

Rolf Stahel, Ruedi Aebersold, Annemarie Ziegler 

P-MON-037 

Ultra-Sensitive Analysis Of Cancer Leakage Biomarkers Using The Proximity 

Ligation Technology 

Spyros Darmanis (Uppsala University, SWEDEN), Ulf Landegren, Masood Kamali- 

Moghaddam, Anders Alderborn 

P-MON-026 

P-MON-027 

P-MON-028 

Serum Proteome Profiling Of Cystic Fibrosis Patients: A 2de-Ms And Lc-Ms/Ms 

Approach 

Nuno Charro (Laboratorio Proteomica, Deptº. Genetica Humana INSA, PORTUGAL 

/ Clinical Proteomics Facility, University of Pittsburgh Medical Centre, USA), Bruno 

Alexandre, Paula Pacheco, António de Almeida, Thomas Conrads, Deborah Penque 

Identification Of Disease Regulated Serum Proteins In Lung Cancer Of C-Myc 

And C-Raf Transgenic Mice 

Bijon Chatterji (Fraunhofer ITEM, GERMANY), Juergen Borlak 

Hsp27 And Prx-2: Potential Clinical Biomarkers For Barrett’s Esophagus Early 

Detection, Therapy And Prognosis 

Yan Cheng (Department of Gastroenterology, CHINA), Jun Zhang 

P-MON-038 

P-MON-039 

P-MON-040 

Integration Of Proteomics And Genomics To Identify Biomarkers For Colon Cancer 

Meike de Wit (Department of Pathology, VU University medical center, THE 

NETHERLANDS), Connie R. Jimenez, Beatriz Carvalho, Sander Piersma, Rolf 

Lamerichs, Gerrit A. Meijer, Remond J.A. Fijneman 

Peptidome Profiling Of Ovarian Cancer By Maldi-Tof/Ms 

Anna Della Corte (‘John Paul II’ Center-Catholic University, ITALY), Marco D’Imperio, 

Michela Di Michele, Maria De Ninno, Maria Benedetta Donati, Domenico Rotilio 

Cell Surface Protein Profiling And Identification Of Galectin-1 As A Potential Renal 

Cell Carcinoma Biomarker Using Cell Culture On Proteinchip And Maldi-Tof Ms 

Hassan Dihazi (Nepehrology & Rheumatology, Medical Center Goettingen, GERMANY), 

Claudia Mueller, Abdul R. Asif, Thomas Flad, Abderrahim Elmaouhoub, Gerhard A. Mueller 

P-MON-029 

P-MON-030 

P-MON-031 

P-MON-032 

P-MON-033 

P-MON-034 

P-MON-035 

P-MON-036 

Quantitative Proteomic Analysis Of Human Amniotic Fluid 

Chan-Kyung J. Cho (University of Toronto, Mount Sinai Hospital, CANADA), 

Christopher Smith, Elizabeth Winsor, Eleftherios Diamandis 

Comparison Of Secreted Protein Expression From Hepg2 Cells Exposed To 

Benzo(A)Pyrene And Benz(A)Anthracene 

Seonyoung Choi (Korea University, KOREA), Zhi Zheng, Eunkyung Cho, Ji-Young Lee, 

Min Lee, So-Young Park, Donggeun Sul 

An Optimized Time Alignment Algorithm: Cow Using Coda-Selected Mass 

Chromatograms 

Christin Christin (Department of Analytical Biochemistry, University of Groningen, 

THE NETHERLANDS), Age Smilde, Huub Hoefsloot, Frank Suits, Rainer Bischoff, 

Peter Horvatovich 

Proteomic Profiling Of Normal Human Tears 

CY Chu (The Chinese University of Hong Kong, CHINA), JCF Pong, TCW Poon, CC 

Wang, CP Pang 

Identification Of Potential Biomarkers For The Detection Of Breast Cancer By 

Seldi-Tof Ms 

Liping Chung (Kolling Institute of Medical Research, University of Sydney, AUSTRALIA), 

Sabah Shibli, Deborah Marsh, Katrina Moore, Robert Baxter 

Identification And Characterization Of New Blood-Accessible Colorectal Cancer 

Biomarkers 

Paolo Conrotto (ETHZ, SWITZERLAND), Jascha Rybak, Dario Neri, Philippe Kischel, 

David Waltregny, Vincent Castronovo 

Identification Of Differentially Expressed Plasma Membrane Proteins In Renal 

Cancer 

Vassilis Aggelis, Rachel Craven (Cancer Research UK Clinical Centre, UNITED KINGDOM), 

Robert Tonge, Jianhe Peng, Patricia Harnden, Peter Selby, Rosamonde Banks 

Identification Of Differentially Expressed Proteins In Acute Coronary Syndromes 

Veronica M. Darde (Immunology Department. Fundacion Jimenez Diaz / Proteomics 

Unit. Hospital Nacional de Paraplejicos. SESCAM, SPAIN), Maria G. Barderas, Fernando de 

la Cuesta, Julio J. Nacher, Lorenzo Lopez-Bescos, Jose Tunon, Jesus Egido, Fernando Vivanco 

P-MON-041 

P-MON-042 

P-mon-043 

P-MON-044 

P-MON-045 

P-MON-046 

P-MON-047 

P-MON-048 

Mrm Assay Development For Targeted Proteomics Of Genomics Candidates For 

Progression Of Crc 

Joerg Dojahn (Applied Biosystems Germany, GERMANY), Beatriz Carvalho, Jakob 

Albrethsen, Jaco C. Knol, Matthias Glückmann, Christof Lenz, Connie R. Jimenez, 

Gerrit A. Meijer 

SELDI-TOF-MS Meets BN-PAGE: Combining Protein Interaction Studies And 

Biomarker Discovery 

Niko Escher (Institute of Human Genetics and Anthropology, GERMANY), Robert Kob, 

Melle Christian, Ferdinand von Eggeling 

Comparative Proteomic Analysis Of Korean Native Cattle Muscle From Different 

Depots 

Jang Eun Jeong (National Institute of Animal Science, KOREA), Park Soo-Jin, Park 

Mi-Rim, Kwon Seulmina, Hong Sung-Gu, Kim Dong-Woon, Lee Hyun-Jeong 

Global Mapping Of Transcription Factor Expression Patterns 

Jeffrey Falk (Aviva Systems Biology, UNITED STATES), Lingxun Duan, Mingjie Jin, 

Dongyan Liu, Xiang Dong Fu 

A Quantitative Immunoaffinity Enrichment – LC/MS/MS Method For MMP9 From 

Mouse Serum 

Mireia Fernandez Ocana (Pfizer, UNITED KINGDOM), Hendrik Neubert, Phil Clarke, 

Mark Fidock 

Identification Of Colorectal Cancer Biomarkers From Mouse Colon Tumor Secretome 

Remond J.A. Fijneman (VU University Medical Center, Dept. of Medical Oncology / 

Dept. of Pathology, THE NETHERLANDS), Meike de Wit, Maral Pourghiasian, Sander 

Piersma, Pien M. van Diemen, Victor W.H. van Hinsbergh, Ron Smits, Riccardo 

Fodde, Gerrit A. Meijer, Connie R. Jimenez 

Biomarker Discovery In A Mouse Model Of Trait Anxiety 

Michaela Filiou (Laboratory of Proteomics and Biomarkers, GERMANY), YY Zhang, B Bisle, 

E Frank, MS Kessler, K Haegler, G Maccarrone, B Hambsch, R Landgraf, CW Turck 

Differential Protein Expression Analysis Of Endothelial Cells Treated With 

Growth Factors 

John Flensburg (GE Healthcare Bio-Sciences AB, SWEDEN), Mandana Fasth, Fuad 

Bahram, Lena Claesson-Welsh 

70 71

P-MON-049 

P-MON-050 

P-MON-051 

P-MON-052 

Separation Of Endogenuous Plasma Adiponectin Oligomers And Isoforms Using 

Free Flow Electrophoresis 

Aude Foucher (BD, UNITED STATES), Craig Gelfand 

Diagnostic Plasma Biomarkers Of Alcoholism In Non-Human Primates 

Willard M Freeman (Penn State College of Medicine, UNITED STATES), Pamela Noto, 

Heather VanGuilder, Kathleen Grant, Kent Vrana 

Withdrawn 

Proteomics And Molecular Markers In Cin2-3 Punch Biopsies And Normal 

Cervical Epithelium 

Ane Cecilie Munk, Cristina Furlan (Department of Pathology, Stavanger University 

Hospital, NORWAY), Ivar Skaland, Emiel Janssen, Cato Brede, Kjell Løvslett, Bent 

Fiane, Stein-Tore Nilsen, Jan P.A. Baak, Anne Bjørnstad 

P-MON-063 

P-MON-064 

P-MON-065 

Role Of Pkc¦Â In Hepatocellular Carcinoma Cells Migration And Invasion: A 

Potential Therapeutic Target 

Kun Guo (Liver Cancer Institute, Zhong shan Hospital, Fudan University / Research 

Center for Cancer, Institute of Biomedical Science, Fudan University, CHINA), 

Xiaonan Kang, Yan Li, Xuefei Li, Lu Sun, Yinkun Liu 

Quantitative Proteomic Analysis Of The Matrix Proteins From Human Dermal 

Fibroblasts 

Moon Kyung Ha (Department of Biochemistry and Molecular Biology, SOUTH KOREA), 

Haeri Choi, Young Hoon Son, Jiheon Rhim, Sung Chun Cho, Sang Chul Park 

A New Strategy For Plasma Protein Biomarker Discovery In Ovarian Cancer 

Ruth Hüttenhain (Institute of Molecular Systems Biology, ETH Zurich / Competence 

Center of Systems Physiology and Metabolic Diseases, ETH Zurich, SWITZERLAND), 

Daniela Dinulescu, Bruno Domon, Ruedi Aebersold 

P-MON-053 

P-MON-054 

P-MON-055 

P-MON-056 

Identification Of Differentially Expressed Genes Between Diabetes VS Healthy 

Srinubabu Gedela, Appa Rao Allam (Andhra University College of Engineering, INDIA) 

Proteomic Analysis Of Differentially Expressed Proteins In Swiss Mice Following 

Glyphosate Exposure 

Jasmine George (Indian Institute of Toxicolgy Research, INDIA), Preeti Roy, 

Yogeshwer Shukla 

Stratification And Monitoring Of Juvenile Arthritis Patients By Synovial 

Proteome Profile 

David Gibson (Arthritis Research Group, Queen’s University Belfast, UNITED KINGDOM), 

Sarah Blelock, Sorcha Finnegan, Caitriona Scaife, Stephen Pennington, Michael Dunn 

The Candida Immunome As A Mine For Clinical Biomarker Development For 

Invasive Candidiasis 

Aida Pitarch, César Nombela, Concha Gil (Department of Microbiology II, Faculty of 

Pharmacy, Complutense University of Madrid, SPAIN) 

P-MON-066 

P-MON-067 

P-MON-068 

P-MON-069 

Peptidome And Proteome Analyses Of Lymph Nodes In A Mouse Model Of 

Chemical-Induced Asthma 

Steven Haenen (K.U. Leuven, BELGIUM), Elke Clynen, Jeroen Vanoirbeek, Peter Hoet, 

Liliane Schoofs 

Absolute Quantitation Of Endogenous Peptides Using High Resolution Selected 

Reaction Monitoring 

Reiko Kiyonami, Rosa Viner, Vlad Zabrouskov, Akraporn Prakobphol, H. Ewa Witkowski, 

Steven C. Hall, Susan J. Fisher, Markus Hardt (Thermo Fisher Scientific, UNITED STATES) 

Proteomics And Subproteomics In The Quest For New Diagnostic Leads In Human 

Disease 

Niels H.H. Heegaard (Statens Serum Institut, DENMARK) 

Promising Tool For Diagnostic Evaluation Of Hepatitis Induced Fibrogenesis 

Corinna Henkel (Institute of Pathology, RWTH University Hospital Aachen, GERMANY), 

Kristina Schwamborn, Olav Gressner, Margarete Odenthal, Ruth Knuechel, Ralf Weiskirchen 

P-MON-057 

P-MON-058 

P-MON-059 

P-MON-060 

P-MON-061 

P-MON-062 

Identification Of Parkinson’s Disease Markers By Systematic Screening Of 

Protein Arrays 

Heike Goehler (Medizinisches Proteom-Center, Ruhr-University Bochum, GERMANY), 

Axel Kowald, Angelika Lueking, Christian Scheer, Florian Tribl, Manfred Gerlach, 

Peter Riederer, Katrin Marcus, Helmut E. Meyer 

Withdrawn 

Proteomic Analysis Of Urine From Patients With Urologic Chronic Pelvic Pain 

Syndromes 

Young Ah Goo (University of Washington, UNITED STATES), Clair Yang, Priska von 

Haller, Alvin Liu, David Goodlett 

The Evolution Of Tissue Markers Analyzed By Maldi-Ms Imaging 

Richard Goodwin (Institute of Biomedical and Life Sciences, University of Glasgow, 

UNITED KINGDOM), Stuart Cobb, Andrew Pitt 

Identification Of Protein Biomarker For Schizophrenia In The Postmortem 

Prefrontal Cortex Using 2D Electrophoresis Analysis 

Maria Jose Guerrero (Proteomika S.L, SPAIN), Marcel Ferrer-Alcón, Laureano 

Simón, Antonio Martinez, Jose Javier Meana 

Investigation Of The Serum Proteome To Look For Ionizing Radiation Biomarkers 

Olivier Guipaud (Institut de Radioprotection et de Sûreté Nucléaire, FRANCE), Marie 

Thézénas, Valérie Holler, Joëlle Vinh, Marc Benderitter 

P-MON-070 

P-MON-071 

P-MON-072 

P-MON-073 

P-MON-074 

P-MON-075 

Validation Of High Throughput Protein Biomarker Assays 

Nicholas B. Herold (Quadraspec, Inc., UNITED STATES), Fred E. Regnier, Chad W. Barden 

Targeted Proteomics Of Transcription Factors In Breast Cancer And Embryonic 

Stem Cells 

Johannes Hewel (Terrence Donnelly Centre for Cellular and Biomolecular Research, 

University of Toronto, CANADA), Charanjit Sandhu, Kento Onishi, Peter Zandstra, 

Andrew Emili 

Multi-Institutional Validation Of Plasma Biomarker Of Pancreatic Cancer By 

MALDI-TOF-MS 

Kazufumi Honda (Cancer Proteomics Project National Cancer Center Research 

Institute, JAPAN), Masaya Ono, Tesshi Yamada 

Withdrawn 

Mining The Serum Proteome For Cervical Cancer Biomarkers 

Péter Horvatovich (University of Groningen, THE NETHERLANDS), Natalia 

Govorukhina, Iwona Sobczak-Elbourn, Krisztina Páal, Frank Suits, Peicheng Du, 

Christin Christin, Berend Hoekman, Ate van der Zee, Rainer Bischoff 

A Search For Biomarkers Of Type 1-Diabetes By Lc-Esi-Itraq And Label Free 

Lc-Maldi Serum Proteomics 

Waltteri Hosia (Turku Centre for Biotechnology, FINLAND), Robert Moulder, Heidi 

Vähämaa, Jussi Salmi, Tero Aittokallio, Mikko Katajamaa, Olli Simell, Olli Nevalainen, 

Riitta Lahesmaa, et.al. 

72 73

P-MON-076 

Identification And Evaluation Potential Biomarkers Of Human Glioblastoma Multiforme 

Chiungyin Huang (Chang-Gung Memorial Hospital, TAIWAN), Li-Ying Feng, Jyh-Wei Shin, 

Kuo-Chen Wei 

P-MON-089 

Proteomic Analyses Of Microbial Activity In The Human Gut – The Beginning 

Carolin Kolmeder (Department of Basic Veterinary Sciences, University of Helsinki, 

FINLAND), Anne Salonen, Airi Palva, Willem M. de Vos 

P-MON-077 

A Novel System For Efficiently Screening Tumor-Related Proteins Using Antibody 

Proteomics 

Sunao Imai (NiBio / Osaka University, JAPAN), Shin-ichi Tsunoda, Yasunobu Yoshida, 

Shinsaku Nakagawa, Junya Fukuoka, Yasuo Tsutsumi 

P-MON-090 

Apc-Binding Protein EB1 Is Novel Prognostic Biomarker In Hepatocellular Carcinoma 

Tatsuya Orimo, Hidenori Ojima, Nobuyoshi Hiraoka, Shigeru Saito, Satoru Todo, 

Setsuo Hirohashi, Tadashi Kondo (Proteome Bioinformatics Project, National Cancer 

Center Research Institute, JAPAN) 

P-MON-078 

P-MON-079 

P-MON-080 

P-MON-081 

P-MON-082 

P-mon-083 

Characterization Of Inflammatory/Oxidative Stress Protein Modifications 

Jon Jacobs (Pacific Northwest National Laboratory, UNITED STATES), Weijun Qian, 

Diana Bigelow, Collette Sacksteder, Richard Corley, Joel Pounds 

Proteome Analysis For Identification And Validation Of Potential Biomarkers In 

Colorectal Cancer 

Lucy Jankova (ANZAC Research Institute, AUSTRALIA) 

Protein Profiles Differentiating Triple Negative Breast Cancer From Er/Pgr 

Expressing Breast Cancer 

Eun-Mi Jeong (Cancer Research Institute, Seoul National University College of Medicine, 

KOREA), Jong Won Lee, Wonshik Han, Ji-Yeon Bae, Jae Kyo Yi, Dong Hyun Kim, 

Cheolju Lee, Myeong-Hee Yu, Dong-Young Noh 

Parallel Analysis Of Proteomic And Metabolic Profiles On Nonalcoholic Fatty 

Liver Disease 

Ying Jiang (State Key Laboratory of Proteomics, Beijing Proteome Research Center, 

Beijing Institute of Radiation Medicine, CHINA), Hao Li, Lan Wang, Youming Li, Fuchu He 

Antibody Pattern And Retinal Ganglion Cell Loss In A Heat Shock Protein 

Immunization Animal Model 

Stephanie Joachim (Experimental Ophthalmology, GERMANY), Martin Wax, Norbert 

Pfeiffer, Franz Grus 

Proteomic Anaysis Of Differentially Expressed Proteins In Colorectal Cancer 

Kee Kang (Deaprtment of Biochemistry, Gyeongsang National University School of 

Medicine, KOREA), Jung-Hun Kang, Young-Tae Joo, Eun-Jung Jung, Gyeong-Won Lee, 

Hoon-Gu Kim, Hee Cho, Bok Cho, Sang-Kyung Choi 

P-MON-091 

P-MON-092 

P-MON-093 

P-MON-094 

P-MON-095 

IsoAsp7-containing Beta-Amyloid As A Potential Biomarker Of Alzheimer’s Disease 

Philipp Tsvetkov, Igor Popov, Eugene Nikolaev, Alexander Archakov, Alexander Makarov, 

Sergey Kozin (Orekhovich Institute of Biomedical Chemistry, Russian Academy of 

Medical Science, RUSSIAN FEDERATION) 

Guided Interpretation Of Clinical Proteome Profiling In Acute Myocardial Infarction 

Markus Kubicek (Department of Medical and Chemical Laboratory Diagnostics, 

Medical University of Vienna, AUSTRIA), Klaus Distelmaier, Rene Stempfer, Daniela 

Dunkler, Susanne Winkler, Johannes Jakowitsch, Helge Wimmer, Christopher Gerner, 

Irene Lang, Oswald Wagner 

Ovarian Cancer Ascites Fluid Subproteome: Home Of Potential Biomarkers For 

Ovarian Cancer 

Cynthia Kuk (Department of Laboratory Medicine and Pathobiology, University of 

Toronto / Department of Pathology and Laboratory Medicine, Mount Sinai Hospital, 

CANADA), Antoninus Soosaipillai, Vathany Kulasingam, Chris R. Smith, Ihor Batruch, 

Eleftherios P. Diamandis 

Spermatozoa Fertility Biomarkers Display by Intact Cells MALDI-TOF Mass Spectrometry 

Valérie Labas (INRA, Plate-forme de Protéomique Analytique et Fonctionnelle – 

Laboratoire de Spectrométrie de Masse, FRANCE), Clémence Belleannee, Maya 

Belghazi, Françoise Dacheux, Jean-Louis Dacheux 

Biomarker Discovery By MRM – Combining Sensitivity With Throughput 

Vinzenz Lange (Competence Center for Systems Physiology and Metabolic Diseases 

/ Institute for Molecular Systems Biology, ETH Zürich, SWITZERLAND), Carsten 

Danzer, Alexander Schmidt, Katrin Eckhardt, Reto Ossola, Bruno Domon, Wilhelm 

Krek, Ruedi Aebersold 

P-MON-084 

P-MON-085 

P-MON-086 

P-MON-087 

Reduced Level Of Peroxiredoxin Proteins In Cancer Determined Using Stable 

Isotope Labeled Quantitative Plasma Analysis 

Hiroyuki Katayama (Fred Hutchinson Cancer Research Center, JAPAN), Vitor Faca, 

Sandra Faca, Sharon Pitteri, Ji Qiu, Hong Wang, Alexei Krasnoselesky, Lisa Newcomb, 

Qing Zhang, Sam Hanash 

Disease-Specific Serum Peptides In Patients With Systemic Sclerosis 

Ynag Xiang, Toshihiro Matsui, Mitsumi Arito, Naoya Suematsu, Kazuo Yudoh, 

Tomohiro Kato (Clinical Proteomics and Molecular Medicine, St. Marianna University 

Graduate School of Medicine, JAPAN) 

The ‘Blood Donor Biobank’: An Innovative Resource For Biomarker Research 

Claudia Kellner (Blutspendedienst des Bayerischen Roten Kreuzes gGmbH, GERMANY) 

Proteomic Analysis Identifies S100A8 And S100A9 As Serological Markers For 

Colorectal Cancer 

Hye-Jung Kim (Life Sciences Division, Korea Institute of Science and Technology / 

Department of Biochemistry, College of Science, Yonsei University, KOREA), Hyun Ju 

Kang, Seung-Taek Lee, Myeong-Hee Yu, Hoguen Kim, Cheolju Lee 

P-MON-096 

P-MON-097 

P-MON-098 

P-MON-099 

Analysis Of Serum Glycoproteins Relevant To Breast Cancer By An Indirect 

Approach Using Hs578T Cells 

Younghee Ahn, Un-Beom Kang, Myeong-Hee Yu, Cheolju Lee (Life Sciences Division, 

Korea Institute of Science and Technology, KOREA) 

Selection And Validation Of Liver Cancer Biomarker Candidates From Human 

Plasma Proteome 

Ju Yeon Lee (Korean Basic Science Institute, KOREA) 

Identification Of Inadequately Expressed Proteins In Plasma Of Recurrent 

Spontaneous Abortion (RSA) Patients 

Min-Young Lee (Graduate School of Life Science and Biotechnology, Pochon CHA 

University, CHA General Hospital, KOREA), Myung-Sun Kim, Bon-Hee Gu, Jong-Ho 

Choi, Sangjin Song, Bum-Chae Choi, Kwang-Hyun Baek 

Proteomic Analysis In The Substantia Nigra Of The Mouse Exposed To The Paraquat 

Sujin Lee (School of Life Sciences & Biotechnology, College Of Natural Sciences, 

Kyungpook National University, KOREA), Sun-Mi Yun, Hyun Tae Kim, Ung-Kyu Choi, 

Nam Sik Eum, Gui-hyang Choi, Song Cui, Tae-Cheon Kang, Soo Young Choi, Oh-Shin Kwon 

P-MON-088 

Identification Of PGK1 As Biomarker For Oxidative Stress 

Jong Sang Kim (Kyungpook National University, School of Life and Food Sciences, 

KOREA), Chan Ho Jang, In Ae Lee, Lesley Quintos, Mi Kyung Sung, Sung Joon Lee 

P-MON-100 

Proteome Profiling Of Primary Mammary Epithelial Cells Derived From MMTVneu 

Mice 

Taehoon Lee (Sigmol Inc., THE NETHERLANDS), Incheol Shin, Sungwoo Park, Dong Young Noh 

74 75

P-MON-101 

Proteomic Profiling For Candidate Biomarkers Of Breast Cancer Response To 

Chemotherapy 

Sharon Leong (Kolling Institute of Medical Research, The University of Sydney, 

AUSTRALIA), Samath Pen, Richard Christopherson, Robert Baxter 

P-MON-114 

Proteomics Analysis Of Isolated Membrane Fractions From Normal And 

Cancerous Breast Cell Lines 

Priyanka Maurya (National Institute for Cellular Biotechnology, IRELAND), Michael 

Henry, Martin Clynes, Paula Mealedy 

P-MON-102 

P-MON-103 

P-MON-104 

P-MON-105 

P-MON-106 

P-MON-107 

P-MON-108 

P-MON-109 

Withdrawn 

Quantitative, Top-Down Identification Of Differentially Expressed, Endogenous 

Peptides In Maternal Serum 

Mary F Lopez, David Sarracino (ThermoFisher Scientific BRIMS, UNITED STATES), 

Bryan Krastins, Kypros Nicolaides, Michael Athanas, Amol Prakash 

Discovery Of Mechanistic Biomarkers With A Causal Network Model Of Gefitinib 

In Cancer 

Joseph Loureiro (Genstruct, Inc., UNITED STATES), Gil Blander, Ben Wong, Ailan Guo, 

Dave Merberg, Christian Reich, Michael Comb, Keith Elliston 

Proteomic Analysis Of Circulating Immune Complexes Reveals Disease-Associated 

Proteins 

Jason Low (Saint Louis University School of Medicine, UNITED STATES), Anil Chauhan, 

David Gibson, Mengmeng Zhu, Sixue Chen, Madeleine Rooney, Terry Moore 

Identification Of Significantly Differentially Expressed Peptides In Pre-Eclamptic 

Tissue 

Theo M. Luider (Dept. of Neurology, Erasmus Medical Center, THE NETHERLANDS), 

Coskun Guzel, Christianne JM de Groot, Eric A.P. Steegers 

Diagnostic Information Of Serum Protein Profiling Independent Of CA125 In 

Ovarian Tumors 

Anne Kjaergaard Callesen, Jonna Skov Madsen (Department of Clinical Biochemistry, 

Vejle County Hospital, DENMARK) 

Proteomic Screen Identifies A Panel Of Proteins Indicative Of Response To Gefitinib 

Parag Mallick (Cedars-Sinai Medical Center / UCLA, UNITED STATES) 

Proteomic Profiling Of Retinoblastoma: A Preliminary Study 

K Mallikarjuna (Vision Research Foundation, Sankara Nethralaya, INDIA), S Krishnakumar, 

J Biswas, PR Deepa, V Khetan, T Sharma, L Gopal, CS Sundaram, Y Sharma 

P-MON-115 

P-MON-116 

P-MON-117 

P-MON-118 


P-MON-120 

The Development Of An Mrm Assay For Quantitation Of Low Abundance 

Cytochrome P450 Proteins 

Therese McKenna (Waters Corporation MS Technologies Centre, UNITED KINGDOM), 

Amy Bartlett, Christopher Hughes, Johannes Vissers, Scott Geromanos, Catalin 

Donneanu, James Langridge 

Bronchoalveolar Lavage Fluid Proteomics Patterns In Sulfur Mustard Exposed 

Patients 

Hossein Mehrani (Baqiyatallah University of Medical Sciences, IRAN), Mostafa Ghanei, 

Jafar Aslani, Leila Golmanesh 

A Label Free Quantitative Proteomic Strategy And Its Application In Biomarker 

Discovery Based On LC-ESI-MS/MS 

Chen Ming (Tianjing Institute of Hygiene and Environmental Medicine /Beijing Proteome 

Research Center, CHINA), Ying Wantao, Qian Lingjia, Qian Xiaohong 

Bioinformatics For Proteomic Analyses Applied To Metastatic Disease In 

Prostate Cancer 

Alberto Molares Vila (Department of Analytical Chemistry, Chemistry Faculty, University 

of Vigo / Biomedical Foundation of Vigo University Hospital, SPAIN), Alejandro Gómez 

Pinillos, Gonzalo Gómez López, María del Val Toledo Lobo, Juan Oses Prieto, Antonio 

Ojea Calvo, Enrique Caso Peláez, Ana Gago Martínez 

Determination Of Biomarkers Of Skin Disease By MALDI-MS And MALDI-MSI In 

Vitro Skin Models 

Tasneem Muharib (Biomedical Research Centre, UNITED KINGDOM), Vikki Carolan, 

Duncan Rimmer, John White, Malcolm Clench 

Using Different Proteomics Techniques To Identify Glioma- Neovascularisation- 

Related Proteins 

Dana Mustafa (Erasmus MC, Pathology department, THE NETHERLANDS), Peter 

Burgers, Lennard Dekker, Rober-Jan Lamers, Halima Charif, Mark Titular, Peter 

Sillevis Smith, Theo Luider, Johan Kros 

P-MON-110 

P-MON-111 

Cleft Palate Regulated Salivary Proteins 

Reka Tihanyi (Institute of Biochemistry and Medical Chemistry, Medical School, 

University of Pecs, HUNGARY), Tamas Gyula Szabo, Gyula Szabo, Viktoria Nemeth, 

Alexandra Vaczy, Balazs Sumegi, Laszlo Mark 

Development Of Instrument Parameters For Maximum Product Ion Formation In 

MRM MS 

Daniel Martin (Institute for Systems Biology, UNITED STATES), Ashley Eastham, 

Amelia Peterson, Li Huang 

P-MON-121 

P-MON-122 

Identification And Characterization Of YPRC-G1, An N-Linked Glycoprotein And 

Putative Biomarker For Hepatocellular Carcinoma 

Keun Na (Yonsei Proteome Research Center, Department of Biochemistry, Yonsei 

University, KOREA), Eun-Young Lee, Hyoung-Joo Lee, An-Sung Jeong, Kwang-Youl Kim, 

Min-Seok Kwon, Hanna Lee, Sang-Yon Cho, Hoguen Kim, Young-Ki Paik 

Comparison Of Different Immunoaffinity Columns To Remove High Abundant 

Proteins From Follicular Fluid Of Different Species 

Somayyeh Nadaf (INRA, FRANCE) 

P-MON-112 

P-MON-113 

Proteome Analysis Of Schizophrenia Brain Tissue 

Daniel Martins de Souza (Max-Planck-Institut für Psychiatrie and Laboratório de 

Neurociências, GERMANY / Instituto de Psiquiatria – Faculdade de Medicina da USP, 

BRAZIL) Giuseppina Maccarrone, Wagner F. Gattaz, Andrea Schmitt, Emmanuel 

Dias-Neto, Chris W. Turck 

Prostate Cancer Biomarkers To Predict Response To Immunotherapy 

Balwir Matharoo-Ball (The John Van Geest Cancer Research Centre, UNITED KINGDOM), 

Christophe Lemetre, Vicky Adams, Else-Marit Inderberg Suso, Stephen Ward, 

Gustav Gaudernack, Graham Ball, Robert Rees 

P-MON-123 

P-MON-124 

Methods For High-Throughput Analysis Of The Urinary Proteome 

Nagarjuna Nagaraj (MPI Biochemie, GERMANY), Alexandre Zougman, Juergen Cox, 

Matthias Mann 

MS Approaches To Address The Role Of An Amyloid-B In Alzheimer’s Plague 

Formation Onset 

Evgeny Nikolaev (The Institute for Energy Problems of Chemical Physics / Orekhovich 

Institute of Biomedical Chemistry / Emanuel Institute of Biochemical Physics, Russian 

Academy of Science, RUSSIA), Igor Popov, Sergey Kozin, Elena Kugaevskaya, 

Alexander Archakov, Alexey Kononikhin 

76 77

P-MON-125 

P-MON-126 

Pharmaco-Proteomics At The Clinical Blood – Brain Junction 

MingMing Ning (Clinical Proteomics Research Center, Dept of Neurology, Mass 

General Hospital/Harvard Medical School, UNITED STATES), Ferdinando Buonanno, 

Dave Sarracino, Mary Lopez, Dayse Sena, Diana Walleigh, Xiaoying Wang, David McMullin, 

Eng H. Lo 

Identifying Candidate Biomarkers Of Exposure To The Mycotoxin Deoxynivalenol 

Using Proteomics 

Andre Nogueira da Costa (Molecular Epidemiology Unit, Centre for Epidemiology and 

Biostatistics, LIGHT Laboratories, UNITED KINGDOM), Renée S. Mijal, Jeff Keen, 

John Findlay, Christopher P. Wild 

Innovation In Peptide & Protein Seperation Technologies 

P-MON-127 

P-MON-128 

P-MON-129 

P-MON-130 

Isolation Of Protein Isoforms By Free Flow Electrophoresis Preserving Biological 

Activity 

Afsaneh Abdolzade-Bavil (Becton Dickinson GmbH, Planegg, GERMANY), Christian 

Obermaier, Siegfried Hirler, Mikkel Nissum, Christoph Dufter, Gerhard Weber, 

Christoph Eckerskorn 

A Simple Way To Use A 1D Split-Free Nano-HPLC In An Automated 2D LC-MS/MS 

SETUP 

Michael Andersen (Proxeon Biosystems A/S, DENMARK), Paul Taylor, Mike Moran, 

Alexandre Podtelejnikov, Ole Vorm, Thomas Kislinger 

New Stain Free Gel System - Compatibility With Western Blotting And Ms Based 

Protein Identification 

Kumar Bala (Bio-Rad Laboratories, UNITED STATES) 

Proteomics Based On Peptide Fractionation By SDS-Free Page 

Vladimir Besada (Center for Genetic Engineering and Biotechnology, CUBA), Yassel 

Ramos, Elain Gutierrez, Yoan Machado, Aniel Sánchez, Lila Castellanos-Serra, 

Luis Javier González, Jorge Fernández-de-Cossio, Yasset Pérez-Riverol, Lázaro 

Betancourt, Jeovanis Gil, Gabriel Padrón 

P-MON-137 

P-MON-138 

P-MON-139 

P-MON-140 

P-MON-141 

P-MON-142 

P-MON-143 

P-MON-144 

A Multi-Approach Experiment To Analyse Aphid Salivary Proteome 

Frederic Francis (Gembloux Agricultural University, Functional & Evolutionary 

Entomology, BELGIUM), Nicolas Harmel, Eric Haubruge, Edwin de Pauw 

Ultrasonic Assisted Protein Enzymatic Digestion Applied To Gel-Separated 

Proteins 

Marco Galesio (Requinte, Universidade Nova de Lisboa, PORTUGAL), Diana Vieira, 

Raquel Rial, Jose Capelo 

Analysis Of Active Proteins Extracted From Deer Antler By 2D-SEC-IEC 

Liang Gao (Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 

CHINA), Zhen Liang, Lihua Zhang, Yushu Huo, Yukui Zhang 

Detection-Identification Of Trace Protein Impurities Using Combinatorial Peptide 

Libraries 

Luc Guerrier (Bio-Rad Laboratories C/o CEA-Saclay, FRANCE), Egisto Boschetti, 

Frederic Fortis, Pier-Giorgio Righetti 

Phosphopeptides: Coupling Of Immunoaffinity And TIO2 Metal Affinity 

Francois Guillonneau (Plateforme Proteomique Université Paris Descartes, 

FRANCE), Lamya Haddaoui, Patrick Mayeux, Claude Netter, Luc Camoin 

Separation Of Membrane Proteins And Protein Complexes Using Free-Flow 

Electrophoresis 

Kristina Hartmann (BD Diagnostics, Innovation Center Biotechnology, GERMANY), 

Sabine Kronbauer, Markus Islinger, Christoph Eckerskorn, Mikkel Nissum 

Utilization Of Immunoaffinity Interaction For Specific Antibody And Peptide Separation 

MD Hasan (Dalhousie University, Department of Process Engineering and Applied 

Science, CANADA), Yoichi Kumada, Shigeo Katoh 

Solid Phase Extraction - Liquid Chromatography (SPE-lc) Interface For 

Automated Peptide Separation And Identification By Tandem Mass Spectrometry 

Ole Bjeld Hørning (Proxeon A/S, DENMARK), Michael Barrett Andersen, Ole Vorm, 

Ole Nørregaard Jensen 

P-MON-131 

P-MON-132 

P-MON-133 

External Gradient Chromatofocusing For Quantitative Analysis Of Mammalian Lysates 

Karl Burgess (University of Glasgow, UNITED KINGDOM), Kit-Yee Tan, Lachislav 

Tsonev, Terry Sheehan, Ken Cook, Andrew Pitt 

Devil In IEF: Using Electric Conductivity To Monitor Salt Concentration Of 2-DE Samples 

Tzi-Ning Chen, Szu-Yu Wu, Ching-Yu Lin, Han-Min Chen (Department of Life-Science / 

Institutes of Applied Science and Engineering, Catholic Fu-Jen University, TAIWAN) 

Isoelectric Western Blotting (iWB) After Digital Proteome Chip (dPC) Focusing 

Thomas Miller, James Dasch (Protein Forest, UNITED STATES), Malcolm Pluskal, 

Russell Garlick, Stephen Haralampu, Bill Skea, Bhanu Singh, Dave Malarkey, Sun Tam 

P-MON-145 

P-MON-146 

2D Protein And Peptide Separation Of Serum By Preparative Monolithic 

Chromatography 

Linda IJsselstijn (Erasmus Medical Center, Department of Neurology, THE NETHERLANDS), 

Deborah Kronenberg, Remco Swart, Peter Koudstaal, Peter Sillevis Smitt, Monique 

Breteler, Theo Luider 

MSRAT, A Proteomic Sample Software Analysis Tool 

Oren Kagan, James Dasch, Russell Garlick, Bill Skea, Andrew Johnson (Protein Forest, 

Inc., UNITED STATES), Yakov Chudnovsky, David Sabatini, Eric Spooner, William Hahn, 

Milan Chheda 

P-MON-134 

P-MON-135 

P-MON-136 

Fast Targeted Proteomics On A Chip 

Zuzana Demianova (Protein Chemistry Unit, Institute of Biomedicine, University of 

Helsinki, FINLAND), Sami Franssila, Marc Baumann 

An Evaluation Of The Suitability Of 1.9 Um Particle Packed Columns For 

Proteomics Applications 

Monica Dolci, Charlotte Blythe, Dafydd Milton (Thermo Fisher Scientific, UNITED KINGDOM) 

Seppro® Fractionation Platform For Enhanced Detection Of Biomarkers In Biofluids 

Xiangming Fang (GenWay Biotech, Inc., UNITED STATES), Lei Huang, Weijun Qian, 

Sergey Sikora, Kimimichi Obata, Richard Smith, Wei-Wei Zhang 

P-MON-147 

P-MON-148 

P-MON-149 

Proteome Wide Analysis Of Protein Syntesis And -Breakdown In E.Coli 

Gertjan Kramer (University of Amsterdam, THE NETHERLANDS), Merel Nessen, 

Richard Sprenger, JaapWillem Back, Leo de Koning, Jan van Maarseveen, Joost 

Teixeira de Mattos, Klaas Hellingwerf, Luitzen de Jong, Chris de Koster 

SDR HyperD Resin For Detergent Removal Prior To Mass Spectrometry Analysis 

Hongshan Li (Pall Corporation, UNITED STATES), Saurabh Nagpal, Gurpreet Nagpal, 

Brian Miller, Lisa Bradbury 

Microchip-Based Monolithic Immobilized PH Gradient Isoelectric Focusing For 

Protein Analysis 

Yu Liang (Dalian Institute of Chemical Physics, CHINA), Yongzheng Cong, Zhen Liang, 

Lihua Zhang, Yukui Zhang 

78 79

P-MON-150 

P-MON-151 

P-MON-152 

P-MON-153 

Depletion Of High Abundance Proteins In Serum By Protein Imprinted Polymers 

Jinxiang Liu (National Chromatographic R. &. A. Center, Dalian Institute of Chemical 

Physics, CHINA) 

Vascular Wall Profiling Adressess Deep Proteome From Minute Samples. 

Sebastian Mas (Universidad Autonoma Madrid, SPAIN), Roxana Martínez-Pinna, 

Fernando Vivanco, Jesús Egido 

Simple Proteomic Complexity Reduction Strategy For Human Plasma Combines 

Albumin & LgG Removal With Rapid Anion Exchange Fractionation 

Selladurai Masilamani (Pall India Pvt Ltd, INDIA) 

Protein Quantification And Separation Before 2D Electrophoresis Using LFII 

Judit Nagy (Imperial College, UNITED KINGDOM), Fiona Pereira, Stuart Hassard, Tony Cass 

P-MON-163 

P-MON-164 

P-MON-165 

Proteomics On A Chip For Monitoring Autoimmune Diseases 

Richard Schasfoort (University of Twente, THE NETHERLANDS), Bianca Beusink, 

Dietrich Kohlheyer, Angelique Lokate, Ger Pruijn, Ad de Jong, Linda Silvertand, 

Natasja Carol-Visser, Albert Heck, Albert van den Berg 

Use Of A Novel Hydrophilic-PVDF Membrane For The Immunodetection Of 

Phosphorylated Proteins Separated By Gel Electrophoresis 

Jun Park (Millipore, UNITED STATES), Masaharu Mabuchi, Ajay Sharma 

Observing Rapid H/D Exchange Of The Reactive Hydrogen On The Protein 

Molecules By Electrospray-Assisted Laser Desorption Ionization (ELDI) Mass 

Spectrometry 

Jentaie Shiea, Jingyueh Jeng (Department of Biotechnology, Chia Nan University of 

Pharmacy and Science, TAIWAN), Li-Hua Lo, Yi-Tzu Cho, Cheng-Hui Yuan 

P-MON-154 

Profiling Of Low Molecular Weight Human Plasma Proteins 

Myung Hee Nam (Korea Basic Science Institute, KOREA), DongGuen Sul, Jong Bok Seo, 

Jin Hee Lee, Sohee Phark, Kun Cho 

P-MON-166 

Top-Down Proteomics Analysis Using Automated 2D LC And Fractionation 

Evert-Jan Sneekes (Dionex Corporation Amsterdam, THE NETHERLANDS), Bas 

Dolman, Remco Swart 

P-MON-155 

P-MON-156 

P-MON-157 

P-MON-158 

Selective Purification Of Azide-Containing Peptides From Complex Mixtures 

Merel A. Nessen (Mass Spectrometry of Biomacromolecules - Swammerdam 

Institute of Life Sciences (SILS)/ Biomolecular Synthesis - Van ´t Hoff Institute 

for Molecular Sciences (HIMS), University of Amsterdam, THE NETHERLANDS), 

JaapWillem Back, Jan H. van Maarseveen, Gertjan Kramer, Leo J. de Koning, Luitzen 

de Jong, Henk Hiemstra, Chris G. de Koster 

Processing Samples for High-Throughput Clinical Mass Spec Using Parallel 


Jeremy L. Norris (Protein Discovery, Inc., UNITED STATES), James A. Mobley, Greg 

Bowersock, James B. Harkins, Benjamin B. Katz 

Reduction Of High Abundance Proteins In Serum, Plasma And Non-Blood Samples 

With Proteominer Beads 

Aran Paulus (Bio-Rad Laboratories, UNITED STATES), Tim Wehr, Ning Liu, Katrina 

Academia, Steve Freeby, Egisto Boschetti 

The Secretome Of H460 Non Small Cell Lung Cancer Cells: Comparing Workflows 

Sander Piersma (oncoproteomics laboratory / VU medical center medical oncology, 

THE NETHERLANDS), Simone Span, Frank Kruyt, Remond Fijneman, Connie Jimenez 

P-MON-167 

P-MON-168 

P-MON-169 

P-MON-170 

Optimization Of Separation Power In One-Dimensional LC In Analysis Of 

Proteomics Samples 

Bas Dolman (Dionex Corporation Amsterdam, THE NETHERLANDS), Evert-Jan Sneekes, 

Sebastiaan Eeltink, Remco Swart 

Study Of Beta-Catenin-Associated Complex By Nanoprobe-Based Affinity Mass 

Spectrometry 

An-Kai Su (Institute of Chemistry, Academia Sinica, TAIWAN), Hsin-Huang Huang, 

Po-Chiao Lin, Chun-Cheng Lin, Jeou-Yuan Chen, Yu-Ju Chen 

A Facile Buffer Exchange Interface For On-Line Hyphenation With Trypsin 

Microreactor 

Liangliang Sun (National Chromatographic Research and Analysis Center, Dalian 

Institute of Chemical Physics / Graduate School of Chinese Academy of Sciences, CHINA), 

Xiaoqiang Qiao, Dingyin Tao, Zhen Liang, Weibing Zhang, Lihua Zhang, Yukui Zhang 

Protein Fractioned By Microscale Solution Isoelectric Focusing And 

Identification By HPLC-MS/MS 

Dingyin Tao (Chinese Academy of Science, CHINA), Jicheng Duan, Zhen Liang, Weibing 

Zhang, Lihua Zhang, Yukui Zhang 

P-MON-159 

Alternative Two Dimensional Electrophoresis – Offgel Electrophoresis Combined 

With High Sensitivity Microfluidic On-Chip Protein Detection 

Tobias Preckel (Agilent Technologies R&D and Mktg. GmbH & Co.KG, GERMANY), 

Andreas Ruefer, Christian Wenz, Martin Greiner 

P-MON-171 

An Alternative 2D-LC-Separation Scheme For Shotgun Proteomics Coupled To 

ESI Or MALDI MS/MS 

Andreas Tholey (Saarland University, Technische Biochemie, GERMANY), Maria Lasaosa, 

Nathanael Delmotte, Katja Melchior, Thomas Jakoby, Elmar Heinzle, Christian Huber 

P-MON-160 

P-MON-161 

P-MON-162 

Fast And Versatile : Fluroescent Staining Of Protein In Gels With 

Oxacarbocyanines 

Mireille Chevallet (CEA / iRTSV/ LBBSI, FRANCE), Hélène Diemer, Alain van 

Dorsselaer, Thierry Rabilloud 

Highly Efficient Depletion Strategy Improves Erythrocyte Proteome Coverage 

Dramatically 

Jeffrey Ringrose (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht 

University, THE NETHERLANDS), Wouter van Solinge, Shabaz Mohammed, Martina 

O’Flaherty, Albert Heck, Monique Slijper 

Guided Gas-Phase Fractionation: A Strategy To Tackle Duty-Cycle Limitations 

Anne Rokka (Turku Centre for Biotechnology, University of Turku & Ãbo Akademi 

University, FINLAND), Aschwin van der Woude, Santosh Gupta, Matthias Nees, 

Garry Corthals 

P-MON-172 

P-MON-173 

P-MON-174 

New MS-Based Serum Pattern Diagnostics Method Using ZipTip Technology And 

Ultrafiltration 

Ali Tiss (BioCentre and Chemistry Department, University of Reading, UNITED KINGDOM), 

Celia Smith, John Timms, Zhiyuan Luo, Alex Gammerman, Usha Menon, Mike Waterfileld, 

Ian Jacobs, Rainer Cramer 

New Methodology Combining Hydrophobic Gel And FT-ICR MS/MS For Membrane 

Protein Analysis 

Caroline Tokarski (Umr Cnrs 8009, FRANCE), Marianne Fillet, Christian Rolando 

Selective Detection And Enrichement Of Serum Albumin In Human Erythrocyte 

And Urine By Capillary Electrophoresis 

Wei-Lung Tseng (Department of Chemistry, National Sun Yat-sen University-Kaohsiung 

Medical University Joint Research Center, TAIWAN) 

80 81

P-MON-175 

P-MON-176 

P-MON-177 

P-MON-178 

P-MON-179 

Dyes 

P-MON-180 

P-MON-181 

P-MON-182 

P-MON-183 

P-MON-184 

P-MON-185 

P-MON-186 

Ultrasonic Assisted Protein Enzymatic Digestion For Selenium Amino-Acids 

Gonçalo Vale (FCT-UNL, PORTUGAL) 

Potential Of Long Capillary Monolithic Columns For The Analysis Of Protein 

Digests 

Michiel H.M. van de Meent (Utrecht University, THE NETHERLANDS), Gerardus J. 

de Jong 

Reproducibility Of 2D Gel-Based Proteomics Experiments 

David Bramwell, Mary C. Hurley, Alamgir Khan, Katrin Marcus, Jules A. Westbrook, 

Hans Voshol (Novartis Institutes for BioMedical Research, SWITZERLAND) 

An Integrated M-IPG-CIEF-Microenzymatic Reactor-Cze Platform For Protein 

Analysis 

Tingting Wang (Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 

CHINA), Zhen Liang, Lihua Zhang, Yukui Zhang 

Quantitative Proteomics for 2D Gel Electrophoresis using Multiple Saturation 

John Wiktorowicz (The University of Texas Medical Branch, UNITED STATES), Susan 

Stafford, Alexander Kurosky 

High Sensitivity Porous Sprayer (HSPS) In Capillary Electrophoresis-Mass 

Spectrometry (CE-MS) For The Analysis Of Phosphopeptides 

Catherine C.L. Wong (The Scripps Research Institute, UNITED STATES), Chitra 

Ratnayake, Jeff Chapman, John R. Yates III 

Single Drop Microextraction Using Ag Nanoparticles For Peptide Analysis In AP- 

MALDI-MS 

Hui-Fen Wu (National Sun Yat Sen University, TAIWAN) 

Miniaturized Two Dimensional Capillary Electrophoresis On Microchip For Protein 

Analysis 

Cong Yongzheng (National Chromatographic R. & A. Center, Dalian Institute of 

Chemical Physics, Chinese Academy of Sciences, CHINA), Zhang Lihua, Liang Yu, 

Zhang Weibing, Zhang Yukui 

Column Switch Recycling Size Exclusion Chromatography For High Efficient 

Protein Separation 

Huiming Yuan (National Chromatographic Reasearch and Analysis Center, Dalian 

Institute of Chemical, CHINA), Lihua Zhang, Zhen Liang, Yukui Zhang 

Withdrawn 

Development Of Multi-Dimensional Chromatography-Mass Spectrometry 

Techniques For Protein Complex Analysis 

Xiangmin Zhang (Department of Chemistry / Institutes of Biomedical Sciences, 

Fudan University, CHINA), Jia Tang, Mingxia Gao, Chunhui Deng 

A New Protein Equalizer Based on M13 scFv Displaying Library 

Peng Zhao (Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 

CHINA), Lihua Zhang, Zhen Liang, Yukui Zhang 

Molecular Mass Imaging 

P-MON-187 

P-MON-188 

P-MON-189 

P-MON-190 









Maldi Imaging Detection Of A MRI Contrast Agent In Mouse Liver 

Elena Acquadro (BioIndustry Park Canavese, ITALY), Davide Corpillo, Claudia Cabella, 

Luigi Miragoli, Enrico Maria Bucci 

From Lipids To Proteins In One Single Tissue 

Erika Amstalden van Hove (FOM Institute for Atomic and Molecular Physics, THE 

NETHERLANDS), Ivo Klinkert, Tiffany Greenwood, Kristine Glunde, Ron Heeren 

Digital Imaging Mass Spectrometer 

Andreas Bamberger (Physics Institute, Albert-Ludwigs University of Freiburg, 

Freiburg, GERMANY), Casimir Bamberger 

High-Efficiency Ion Mobility Coupled MALDI MS For Tissue Imaging Of 

Endogenous Compounds 

Emmanuelle Claude, Paul Trim, Marten F Snel (Waters Corporation, UNITED KINGDOM), 

Malcolm Clench, Therese McKenna, James Langridge 

Monitoring Drug And Metabolites In Tissue Using Fticr Imaging Mass Spectrometry 

Shannon Cornett (Vanderbilt University, UNITED STATES), Jens Fuchser, Michael 

Becker, Sara L. Frapier, Paul Speir, Richard M. Caprioli 

MALDI-FTMS For Small Molecule Molecular Imaging Of Cancer Targets At 

Therapeutic Dosages 

Michael Easterling (Bruker Daltonics, Inc., UNITED STATES), Nathalie Agar, Claire 

Sauvageot, Jeffrey Agar 

Distribution Of Platinum Salts Evidenced By The Direct Mass Spectrometry 

Analyses Of Tissues 

Christian Larroque (IRCM/CRLC, FRANCE), Nicole Bec, Amina Bouslimani, Frederic Pinguet 

Imaging MS/ms And On-Tissue Protein Identification 

Luke MacAleese (FOM Institute for Atomic and Molecular Physics (AMOLF), THE 

NETHERLANDS), Erika R. Amstalden v. Hove, Jonathan Stauber, Ron M.A. Heeren 

Localizing Allergenic Proteins On The Surface Of Natural Latex Gloves By Ms 

Imaging 

Martina Marchetti (Vienna University of Technology, AUSTRIA), Emmanuel Raptakis, 

Günter Allmaier 

Correlating MALDI Imaging Mass Spectrometry Datasets 

Liam McDonnell (Leiden University Medical Center, THE NETHERLANDS), Alexandra 

van Remoortere, Rene van Zeijl, Andre Deelder 

MALDI Imaging: A Systems Approach To Understanding Embryonic Development 

Céline Meriaux (University of Lille 1, Laboratoire de neuroimmunologie des annélides, 

MALDI Imaging Team, FRANCE), Maxence Wisztorski, Jocelyne Bruand, Julien Franck, 

David Bonnel, Vineet Bafna, Eduardo Macagno, Michel Salzet, Isabelle Fournier 

MALDI-MSI Of Prostate Tissues For Detection Of Cancer And Micrometastatic Disease 

Lisa Cazares, Raymond Lance, Savvas Mendrinos, Michael Williams, MaryAnn Clemments, 

Richard Drake, O. John Semmes (Eastern Virginia Medical School, UNITED STATES) 


Electrospray-Assisted Laser Desorption Ionization (ELDI) Mass Spectrometry 

For Molecular Imaging Of Heart¡BLiver And Brain Tissues 

Jentaie Shiea, Min-Zong Huang (National Sun Yat-Sen University, TAIWAN), Hay-Yan 

Wang, Li-Hua Lo 

82 83

P-MON-200 

P-MON-201 

P-MON-202 

P-MON-203 

P-MON-204 

A Combined Imaging Mass Spectrometry And MRI Study Of Nanoparticle Based 

Drug Delivery Systems 

Jonathan S. Stauber (FOM AMOLF Inst. Atomic/molecular Physics, THE NETHERLANDS), 

Lennaert Klerk, Glenda S. van Bochove, Klaas Nicolay, Ron M.A. Heeren 

Targeted Ion Mobility Imaging Mass Spectrometry : A New Tool For In Situ Identification 

Jonathan Stauber, Basak Kükrer Kaletaş (FOM Inst. Atomic/molecular Physics, THE 

NETHERLANDS), Ingrid M. van der Wiel, Marten Snel, Emmanuelle Claude, Ron M.A. 

Heeren 

Hierarchical Clustering: A New Tool For The Evaluation Of MALDI Tissue Images 

Sören-O Deininger (Bruker Daltonics, GERMANY), Michael Becker, Marc Gerhard, 

Arne Fütterer, Detlev Suckau 

Molecular Imaging Of Abeta Peptides In Hereditary Cerebral Hemorrhage With 

Amyloidosis-Dutch Type 

Alexandra van Remoortere (Biomolecular Mass Spectrometry Unit, LUMC, THE 

NETHERLANDS), René J.M. van Zeijl, Liam A. McDonnell, Marion L.C. Maat-Schieman, 

Ingrid M. Hegeman-Kleinn, Sjoerd G. van Duinen, Kim S. Rutgers, Silvère M. van der 

Maarel, André M. Deelder 

Proteomic Content And Spatial Definition Of Endometriosis Tissue 

Anni Vehmas (Turku Centre for Biotechnology, University of Turku and Ãbo Akademi 

University, FINLAND), Anne Rokka, Garry Corthals 

Organelle And Biological Membranes Proteomics 

P-MON-205 

Searching For Respiratory Biomakers On The Membrane Proteome Of A Sulphate 

Reducing Bacterium 

Maria Gabriela Almeida (REQUIMTE - Faculdade Ciencias e Tecnologia/ Escola 

Superior de Saude Egas Moniz, PORTUGAL), Marta R. Santos, Isabel Moura, Celia 

M. Silveira, Jorge Lampreia 

P-MON-213 

P-MON-214 

P-MON-215 

P-MON-216 

P-MON-217 

P-MON-218 


P-MON-220 

Membrane Proteomics Of Gram-Positive Bacteria By Complementary Approaches 

Doerte Becher (Institute for Microbiology, University Greifswald, GERMANY), 

Susanne Wolff, Hannes Hahne, Michael Hecker 

Nuclear Proteome Of Rice Under Dehydration Reveals Predicted And Unexpected 

Proteins 

Mani Kant Choudhary, Debarati Basu, Asis Datta, Niranjan Chakraborty, 

Subhra Chakraborty (National Institute for Plant Genome Research, INDIA) 

Proteomics Of Molecular Chaperones And Chaperone-Like Proteins In Bacterial 

Membranes 

Srgjan Civciristov (The University of Melbourne, Department of Biochemistry and 

Molecular Biology, Bio21 Institute, AUSTRALIA), Xenia Gatsos, Nicholas Williamson, 

Anthony Purcell, Trevor Lithgow 

Isolation And Evaluation Of Different Peroxisomes Subppopulations From Rat Liver 

Markus Islinger, Afsaneh Abdolzade-Bavil, Sven Liebler, Christoph Eckerskorn (BD 

Diagnostics, GERMANY), Alfred Völkl, Gerhard Weber 

Quantitative Proteomic Analysis Of The Nuclear Matrix In Pre-B Cells 

Rudolf Engelke (MPI of Immunobiology, GERMANY) 

Using Quantitative Proteomics To Identify Proteins Important For Melanoma 

Transformation 

Vaughan Feisst (School of Biological Sciences, The University of Auckland, NEW ZEALAND) 

The Mitochondrial Proteome In Healthy Aging 

Marco Gallo (Medical Genetics - The University of British Columbia, CANADA), Aruna 

Somasiri, Peter Ruzanov, Leonard Foster, Donald Riddle 

Polyspecific Anti-Mitocondrion Antibodies For Proteomics On In Toto Tissue Homogenates 

Elisabetta Gianazza (Gruppo di Studio per la Proteomica e la Struttura delle Proteine, 

Milano, ITALY), Emanuele Loro, Silvia Cazzola, Robin Wait, Carmen Brizio, Lodovica Vergani 

P-MON-206 

P-MON-207 

P-MON-208 

P-MON-209 

P-MON-210 

P-MON-211 

Analysis Of Human Erythrocyte Membrane And Cytosolic Sub-Proteomes By 2-DE 

Gloria Alvarez-Llamas (Department of Immunology, Fundacion Jimenez Diaz, SPAIN), 

Fernando de la Cuesta, Veronica M. Darde, Maria G. Barderas, Fernando Vivanco 

Molecular And Functional Organization Of Yeast Peroxisomal Membrane Protein 

Complexes 

Hanna Amelina (Stockholm University, Department of Biochemistry and Biophysics, 

SWEDEN), Susana Cristobal 

Spatiotemporal Proteomics Analysis Of Autophagy 

Jens Andersen (University of Southern Denmark, DENMARK), Joern Dengjel, Anders Kristensen, 

Maria Hoeyer-Hansen, Soeren Gade-Joergensen, Jakob Bunkeborg, Marja Jaattela 

Proteome Versus Morphology: The Golgi Apparatuses Of Rat Liver And Spermatid. 

Catherine Au (McGill University, CANADA), Alexander Bell, Robert Kearney, Michael 

Hallett, Louis Hermo, Tommy Nilsson, John Bergeron 

Desperately Seeking Comprehensive Membrane Proteomics 

Mark Baker (Australian Proteome Analysis Facility, AUSTRALIA) 

Identification Of Plasma Membrane Proteins Of Human Spermatozoa 

Kathrin Bartho (Ruhr-University Bochum, GERMANY) 

P-MON-221 

P-MON-222 

P-MON-223 

P-MON-224 

P-MON-225 

Using Organelle Proteomics For The Identification Of Novel Anti-Aging Small Molecules 

Alexander Goldberg (Concordia University, Biology Department, CANADA) 

Detecting The Phospholipid-Interacting Proteome By Photocross-Linking And 

Click-Chemistry 

Jacob Gubbens (Utrecht University, THE NETHERLANDS), Eelco Ruijter, Ben de 

Kruijff, Monique Slijper, Rob Liskamp, Toon de Kroon 

Sub-Cellular Proteomic Analysis In Breast Cancer 

Nora Gutierrez-Najera (National Institute of Genomic Medicine (INMEGEN), MEXICO), 

Angel Alvarado-Nuño, Karla Calderon-Gonzalez, Jose Luis Cruz, Santiago March, 

Gerardo Jimenez, Jose Luis Gallegos-Perez 

Membrane Protein Interactome Of The Endoplasmatic Reticulum In Yeast 

Linnea Hedin (Center for Biomembrane Research / Biochemistry and Biophysics, 

Stockholm University, SWEDEN), Ã Björklund, Susana Cristobal, Arne Elofsson 

Quantitative Analysis Of Respiratory Chain Complexes During Anaerobic 

Conditions 

Andreas Helbig (Utrecht University, THE NETHERLANDS), Marco JL de Groot, 

Renske A. van Gestel, Pascalle Daran Lapujade, Albert Heck, Monique Slijper 

P-MON-212 

The Cell Surface Protein Atlas 

Damaris Bausch-Fluck (NCCR Neuro Center for Proteomics, IMSB, ETH Zurich, 

SWITZERLAND), Andreas Hofmann, Thomas Bock, Bernd Wollscheid 

P-MON-226 

Cell Surface Proteomics Of Blood Cancer Cells 

Andreas Hofmann (NCCR Neuro Center for Proteomics, Institute of Molecular Systems 

Biology, SWITZERLAND), Thomas Bock, Damaris Bausch-Fluck, Bernd Wollscheid 

84 85

P-MON-227 

P-MON-228 

Characterization Of Organelles By Protein Correlation Profiling (PCP) Combined 

With SILAC 

Lis Jakobsen (Center for Experimental Bioinformatics, University of Southern 

Denmark, DENMARK) 

Dige Analysis Of Ras-Transformed Fibroblast Cell-Derived Exosomes 

Hong Ji (Ludwig Institute for Cancer Research, AUSTRALIA), Bow Tauro, Eugene 

Kapp, Robert Moritz, Justin Lim, Richard Simpson 

P-MON-241 

P-MON-242 

Phase Transfer Surfactant-Aided Membrane Proteomics For Human Colon Cancer 

Takeshi Masuda (Institute for Advanced Biosciences, Keio University, JAPAN), 

Yasuyuki Igarashi, Hiroyasu Esumi, Tomoyoshi Soga, Masaru Tomita, Yasushi Ishihama 

Towards Interaction Networks Of Peroxisomal Membrane Proteins In Yeast 

Silke Oeljeklaus (Medizinisches Proteom-Center, Ruhr-Universität Bochum, 

GERMANY), Benedikt Reinartz, Michael Kohl, Christian Stephan, Wolfgang Schliebs, 

Ralf Erdmann, Helmut E. Meyer, Bettina Warscheid 

P-MON-229 

P-MON-230 

P-MON-231 

P-MON-232 

P-MON-233 

P-MON-234 

P-MON-235 

The Lpi Technology – New Tools And Methods For Membrane Protein Research 

Anders Karlsson (Nanoxis AB, SWEDEN) 

A Proteomic Approach Toward Comprehensive Expression Of Liver Membrane 

Protein Of Hcv Infected Pakistani Population 

Rizma Khan (Department of Biochemistry, University of Karachi, PAKISTAN), Saadia 

Zahid, Afshan Wasti, MA Rahman, Nikhat Ahmed 

Discovery Of Jak1 Involvement In Osteoclastogenesis By Proteomics 

Hong-Hee Kim (Seoul National University, KOREA), Youngkyun Lee, Jeong Im Ha, 

Seok-Won Hyung, Hee Jung Jung, Sang Won Lee, Zang Hee Lee 

Effects Of Fludarabine Or Cladribine On The Plasma Membrane Proteome Of 

Lymphoma Cells 

Philippa L. Kohnke (The University of Sydney, AUSTRALIA), Ben Crossett, Richard I. 

Christopherson 

Organellar Protein Localization By Quantitative Proteomics And Novel 

Bioinformatics 

Chanchal Kumar (Max Planck Institute for Biochemistry, GERMANY), Francesca 

Forner, Matthias Mann 

Quantitative Proteomics Analysis Of Amino Acid Induced Ribosome Biogenesis 

Katja Malene Larsen (Center for Experimental Bioinformatics, University of 

Southern Denmark, DENMARK) 

Enrichment Of Membrane Proteins By Phase Partitioning Combined With Lectin 

Affinity 

Albert Lee (Department of Chemistry and Biomolecular Sciences, Macquarie 

University, AUSTRALIA), Nicolle Packer, Paul Haynes, Daniel Kolarich, Pia Jensen, 

Mark Baker 

P-MON-243 

P-MON-244 

P-MON-245 

P-MON-246 

P-MON-247 

P-MON-248 

P-MON-249 

Enhanced Detergent Extraction For The Membrane Proteomic Analysis In 

Cyanobacteria 

Jeehyun Oh (Korea Basic Science Institute, KOREA), Joseph Kown, Seung Il Kim, 

Jong-Soon Choi 

Mitochondrial Proteomics For Identification Of Metabolic Unbalance And Cellular 

Stress 

Johan Palmfeldt (Aarhus University Hospital / Aarhus University, DENMARK), Søren 

Vang, Vibeke Stenbroen, Peter Bross, Niels Gregersen 

Down-Regulation Of Two Outer Membrane Proteins Tsx And OmpW Is Required 

For Iron Homeostasis In Escherichia Coli 

Xuanxian Peng (Sun Yat-sen University, CHINA), Xiangmin Lin, Lina Wu, Hui Li, 

Sanying Wang 

High Definition Proteomic Analysis Of Human Monocyte-Derived Macrophages 

(MDM) 

Rita Polati (University of Verona, Dip. Scientifico e Tecnologico, ITALY), Francesca 

Bonini, Alessandra Maria Bossi, Domenico Girelli, Annalisa Castagna 

Subcellular Fractionation In A Fluidic Microsystem 

Anton Posch (Bio-Rad Laboratories GmbH, GERMANY), Aran Paulus, Monika 

Hausmann, Nancy Kunz, Martin Stelzle, Meike Moschallski, Thanh Tu Duong, Gert 

Blankenstein 

Subcellular Proteomics Of Mucin-Containing Vesicles In Goblet Cells 

Ana M Rodriguez-Piñeiro (Gothenburg University, SWEDEN), Malin E.V. Johansson, 

Gunnar C. Hansson 

Glucotoxicity And Pancreatic ß-Cell Dysfunction 

Jean-Charles Sanchez (Geneva University, SWITZERLAND) 

P-MON-236 

P-MON-237 

P-MON-238 

P-MON-239 

P-MON-240 

Efficient Method To Identify Membrane Proteins By Introduction Of Chemical 

And Enzyme Reaction 

JeongEun Lee (Department of Molecular Medicine, KyungPook National University 

School of Medicine, KOREA), Joshep Kwon, Pyong-Gon Moon, Hyun-Ho Hwang, Moon- 

Chang Baek 

Deciphering Phosphoinositide Signalling Pathways In Nuclei By Identifying 

Effector Proteins 

Aurelia Lewis (PROBE proteomic platform, Dept of Biomedicine, NORWAY), Magnus 

Arntzen, Clive D’Santos 

Withdrawn 

Withdrawn 

Differential Proteomic Analysis Of Colorectal Cancer-Derived Exosomes 

Justin WE Lim (Ludwig Institute for Cancer Research / Department of Biochemistry 

and Molecular Biology, University of Melbourne, AUSTRALIA), Eugene A. Kapp, 

Robert L. Moritz, Richard J. Simpson 

P-MON-250 

P-MON-251 

P-MON-252 

P-MON-253 

Proteomic Analysis Of Oxidative Damage To Mitochondrial Complex I In 

Parkinson’s Disease 

Birgit Schilling (Buck Institute for Age Research, UNITED STATES), Srinivas Bharath, 

Steven R. Danielson, Jason M. Held, Julie K. Andersen, Bradford W. Gibson 

Quantitative Surface Proteome Analysis Of Pancreatic ß-Cells By Targeted Mass 

Spectrometry 

Alexander Schmidt (Institute of Molecular Systems Biology, ETH Zurich/ Competence 

Center for Systems Physiology and Metabolic Diseases, SWITZERLAND), Katrin 

Eckhardt, Carsten Danzer, Lukas Mueller, Bernd Wollscheid, Bruno Domon, Willy 

Krek, Ruedi Aebersold 

Blue Native Page Analysis Of A Mouse Liver Microsomal Fraction 

Faezeh Shekari (Royan institude, IRAN), Bill Jordan, Hossein Baharvand, Ghasem 

Hosseini Salekdeh 

A Novel System For Membrane Protein Expression And Purification 

Wei-Wei Zhang, Li Deng, Qian Ruan, Jenny Cui, Sergey Sikora (GenWay Biotech, Inc., 

UNITED STATES), Xiangming Fang 

86 87

P-MON-254 

P-MON-255 

P-MON-256 

P-MON-257 

P-MON-258 

P-MON-259 

P-MON-260 

P-MON-261 

P-MON-262 

P-MON-263 

P-MON-264 

P-MON-265 

P-MON-266 

P-MON-267 

Quantitative Erythrocyte Membrane Proteome Analysis With Blue-Native/Sds Page 

Monique Slijper (Utrecht University, THE NETHERLANDS), Renske van Gestel, Albert 

Heck, Gert Rijksen, Richard van Wijk, Wouter van Solinge 

A Quantitative Proteomic Analysis Of The Dynamic Changes In Protein Profiles 

Of Lipid Rafts During T-Cell Signaling 

Therese Solstad (The Biotechnology Centre of Oslo, NORWAY), Margarita Strozynski, 

Kjetil Taskén, Bernd Thiede, Knut Martin Torgersen 

The Escherichia Coli Periplasmic Chaperone Sura Is Required For The Biogenesis 

Of Specific Beta-Barrel Proteins En Route For The Outer Membrane 

Didier Vertommen (UCL-de Duve Institute, BELGIUM), Pauline Leverrier, Jean-Francois 

Collet, Natividad Ruiz, Thomas Silhavy 

Two Novel Membrane Extraction Procedures: Liquid And Solid Phase Based Chemistry 

Joerg von Hagen (Merck KGaA, GERMANY), Uwe Michelsen, Maria Wehsling, 

Robertus Hendriks 

TolC, OmpC and LamB Are Critical Outer Membrane Proteins For Tetracycline 

Resistance In Escherichia Coli 

San-ying Wang (Xiamen University, CHINA), Dan-feng Zhang, Hui Li, Zhi-ming Xiang 

Study Of The Mouse Olfactory Receptor-Associated Proteome 

Jenny Adler, Jon Barbour, Silke Oeljeklaus, Astrid Tschapek, Eva M. Neuhaus, Hann 

H. Hatt, Helmut E. Meyer, Bettina Warscheid (Medizinisches Proteom-Center, Ruhr- 

Universitaet Bochum, GERMANY) 

Membrane Proteome Of S.Cerevisiae Vacuoles 

Elena Wiederhold (University of Groningen, THE NETHERLANDS), Tejas Gandhi, 

Hjalmar Permentier, Rainer Breitling, Dirk Jan Slotboom, Bert Poolman 

Membrane Proteomics Analysis Of Solvent Tolerance In Pseudomonas Putida S12 

Dorien Wijte (TNO, THE NETHERLANDS) 

Affinity Profiling Of Adenine Nucleotide-Binding Proteins 

Justina Clarinda Wolters (University Groningen, THE NETHERLANDS) 

Altered Membrane Proteomic Signature In Human Colorectal Cancer 

Chien-Peng Wu, Pei-Yi Lin, Chia-Feng Tsai, Chih-Wei Chien, Chia-Li Han, Chih-Chiang 

Tsou, Ting-Yi Sung, Wen-Lian Hsu, Yu-Ju Chen (Institute of Chemistry, Academia 

Sinica, TAIWAN) 

Gene Expression And Proteomic Profiling Of Induced Hepatotoxicity In Mice 

Victor Zgoda (Institute of Biomedical Chemistry, RUSSIAN FEDERATION), O Tikhonova, 

A Kopylov, L Kurbatov, A Archakov 

Proteomics Analysis Of Human Placenta Syncytiotrophoblast Apical Membrane 

Qi Zhang (Deutsch Forschungsgemeinschaft GRAKO845, GERMANY) 

Proteomics And Phosphoproteomics Of Human Skeletal Muscle Mitochondria 

Xiaolu Zhao (Protein Research Group, Department of Biochemistry and Molecular 

Biology, University of Southern Denmark, DENMARK), Ole Nørregaard Jensen, Kurt 

Højlund, Martin Mogensen 

Exploring The Caveolae Proteome Using Disease-Related Caveolin Mutants 

Yuzi(Emma) Zheng (University of British Columbia, CANADA), Leonard Foster, 

Masayuki Numata 

Quantification I 

P-MON-268 

P-MON-269 

P-MON-270 

P-MON-271 

P-MON-272 

P-MON-273 

P-MON-274 

P-MON-275 

P-MON-276 

P-Mon-277 

P-MON-278 

P-MON-279 

P-MON-280 

A Workflow For Quantitative Proteomic Analysis Of siRNA-Mediated Silencing In 

Human Cells 

Albina Abdrakhmanova (Applied Biosystems, GERMANY) 

Quantitative Phosphorylation Analysis Method By Enzyme-Assisted And 

Chemical Labeling Approach 

Yeong Hee Ahn (Division of Mass Spectrometry, Korea Basic Science Institute, KOREA), 

Ji Yeon Lee, Eun Sun Ji, Kun Cho, Hyun Ju Kang, Hoguen Kim, Jong Shin Yoo 

Protein Expression Analysis Of A Human Osteoblast Differentiation Model 

Rodrigo Alves (Department of Internal Medicine, Erasmus MC, THE NETHERLANDS), 

Marco Eijken, Sigrid Swagemakers, Peter Burgers, Mark Titulaer, Robert-Jan Lamers, 

Theo Luider, Johannes van Leeuwen 

A New Approach For Target Peptides Quantification 

Je-Hyun Baek (Korea Institute of Science and Technology, KOREA), Hokeun Kim, Myeong-Hee Yu 

Label-Free Comparison Of Complex Protein Samples 

Casimir Bamberger (The Scripps Research Institutes, UNITED STATES), Sandra 

Pankow, Tao Xu, Sung Kyu Park, John Yates 

Label-Free Quantification Of Affinity-Purified Proteins: Three Complementary 

Approaches And Their Software Integration 

Alexander Haupt, Martin L. Biniossek, Wolfgang Bildl (Institute of Physiology, 

University of Freiburg, GERMANY), Joerg O. Thumfart, Catrin S. Mueller, Franz 

Jehle, Bernd Fakler, Uwe Schulte 

Spectral Merging To Improve Peptide Identification And Quantitation 

Rosa Viner, Torsten Ueckert, Terry Zhang, Vlad Zabrouskov (Thermo Fisher 

Scientific, UNITED STATES) 

Psaq Strategy For Sensitive And Accurate Quantification Of Biomarkers In 

Serum And Food 

Virginie Brun (CEA / INSERM U880 Exploring the Dynamics of Proteomes, FRANCE), 

Michel Jaquinod, Alain Dupuis, Vinzenz Lange, Jacques-Antoine Hennekinne, Annie 

Adrait, Dorothee Lebert, Jerome Garin 

Speeding Up Peptide Isotopic 18o-Labeling With Ultrasonic Energy 

Ricardo Carreira (REQUIMTE-Departamento de Química, Faculdade de Ciências e 

Tecnologia, Universidade Nova de Lisboa, Campus de Caparica, PORTUGAL), Raquel 

Rial-Otero, Carlos Lodeiro, José Capelo 

Errors In Peptide Quantification Due To Variability In Ion Measurements 

Brian Carrillo (McGill University, CANADA), Xiaoyong Wu, Pascal Pleynet, Daniel 

Boismenu, Sylvie Laboissiere, Robert Nadon, Robert E. Kearney 

Data Quality Of Label-Free LC-MS Differential Proteome Analysis 

Daniel Chamrad, Wolfgang Jabs, Klaus Marquart, Barbara Sitek, Kai Stuehler, Meyer 

Helmut, Carsten Baessmann, Martin Blueggel (Protagen AG, Dortmund, GERMANY) 

Quantification Of P53 Protein In Cancer Cells Treated With Doxorubicin 

Sun Kyu Choi (Chung Nam national university, KOREA), Jung Ok Park, Kwang Pyo Kim, 

Young Hwan Kim 

Time-Resolved Analysis Of Tnf-Alpha Signaling By Quantitative Proteomics And 


Jesper V Olsen, Chunaram Choudhary (Max Planck Institute for Biochemistry, GERMANY), 

Chanchal Kumar, Sonja Krüger, Gaby Sowa, Florian Gnad, Juergen Cox, Matthias Mann 

88 89

P-MON-281 

Accessing Protein Dynamics In Complex Organisms 

Amy Claydon (Proteomics and Functional Genomics Group, University of Liverpool, 

UNITED KINGDOM), Michael Thom, Nick Bond, Kathryn Lilley, Jane Hurst, Rob 

Beynon 

P-MON-294 

High Throughput Quantitative Analysis Of A New Biomarker To Gh Abuse Using 

UPLC-MS/MS 

Richard Kay (HFL Ltd, Newmarket, UNITED KINGDOM), Jane Roberts, Graham Ball, 

Cristiana Velloso, Colin Creaser, Philip Teale 

P-MON-282 

P-MON-283 

P-MON-284 

P-MON-285 

P-MON-286 

P-MON-287 

P-MON-288 

P-MON-289 

P-mon-290 

Withdrawn 

A New Approach To Define The Relative Contribution Of Co-Migrating Proteins 

To Spot Intensity In 2d-Page 

Maarten Dhaenens (Ghent University, BELGIUM), Sofie Vandecasteele, Dieter Deforce 

Elucidating Rapamycin Molecular Action By Quantitative Proteomic Analysis In 

Yeast 

Marjorie Fournier (Stowers Institute for Medical Research, UNITED STATES), 

Norman Pavelka, Ariel Paulson, Mihaela Sardiu, Christopher Seidel, Karin Zueckert- 

Gaudenz, Laurence Florens, Michael Washburn 

Iodine-Tagged Proteomics(Metallomics) Of Human Serum. Quantitative 

Iodoproteomics 

Tamara Garcia-Barrera (Universidad De Huelva, Spain), Elisa Gomez de las Heras, 

Jose Luis Gomez-Ariza 

Robust Protein Quantification In Mass Spectrometry 

Gregory Strubel, Caroline Paulus, Emeline Mery, Laurent Gerfault (Cea/Grenoble 

LETI/DTBS, FRANCE), Florence Ricoul, Jean-Francois Giovannelli, Pierre Grangeat 

8-Plex itraq Facilitated Proteomic Analysis Of Human Prostate Cancer Cells 

Adam Glen (Academic Urology, School of Medicine and Biomedical Science, University 

of Sheffield, UNITED KINGDOM), Chee Sian Gan, Freddy Hamdy, Colby Eaton, Simon 

Cross, Philip Wright, Ishtiaq Rehman 

The Ins And Outs Of 15N Labeling 

Joost Gouw (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht 

University, THE NETHERLANDS), Bas Tops, Peter Mortensen, Albert Heck, Jeroen 

Krijgsveld 

ICPL (Isotope-coded Protein Labelling) QUADRUPLEX Technology For 

Quantitative Proteomics 

Thomas M. Halder (TopLab, GERMANY), Michael Kersten, Achim Brunner, Eva-Maria 

Keidel, Barbara Mueller, Josef Kellermann, Friedrich Lottspeich 

Quantitative Proteomic Analysis Of The Secretome During Myogenesis 

Jeanette Henningsen (Centre of Inflammation and Metabolism, University of 

Copenhagen, DENMARK) 

P-MON-295 

P-MON-296 

P-MON-297 

P-MON-298 

P-MON-299 

P-MON-300 

P-MON-301 

P-MON-302 

P-MON-303 

Protein Expression Changes In Human Neuroblastoma Cells Treated With 

Azaspiracid-1 

Ralf Kellmann (Department of Molecular Biology, The University of Bergen, NORWAY), 

Toril A. Groenset, Kari E. Fladmark 

Quantitative Synaptic Proteome Analysis In A Transgenic Migraine Mouse Model 

Expressing Mutated Cav.2.1 Channels 

Oleg Klychnikov (Biomolecular Masspectrometry Unit, Dept. Parasitology LUMC, THE 

NETHERLANDS), Oleg Mayboroda, Ka Wan Li, Igor Sidorov, Sabine Spijker, August 

Smit, Rune Frants, Michel Ferrari, Andre Deelder, Arn Maagdenberg 

Label-Free Absolute Quantitative Analysis In Mass Spectrometry 

Arthur Kopylov (Institute of Biomedical Chemistry RAMS, RUSSIAN FEDERATION), 

V Zgoda, A Archakov 

The SILAC-Mouse: A New Tool For Quantitative Proteomics In Vivo 

Marcus Krüger (Max-Planck-Inst. for Heart and Lung Research, GERMANY), Markus 

Moser, Siegfried Ussar, Christian Luber, Franscesca Forner, Sara Zanivan, Sara 

Schmidt, Thomas Braun, Rheinhard Fässler, Matthias Mann 

MRM Based, Multiplexed, Absolute Quantitation Of 32 Proteins In Human Plasma 

Michael Kuzyk (University of Victoria - Genome BC Proteomics Centre, CANADA), 

Derek Smith, Tyra Cross, Juncong Yang, Angela Jackson, Darryl Hardie, Leigh 

Anderson, Christoph Borchers 

The Effect Of Heat Treatment On The Degradation Of Proteins In Brain Tissue 

Alastair Lang (Glasgow University, UNITED KINGDOM), Richard Goodwin, Andrew Pitt 

The Path To Absolute Protein Quantification Using LC-MS 

Jim Langridge (Waters Corporation, UNITED KINGDOM), Martha Stapels, Scott 

Geromanos, Hans Vissers, Hans Aerts 

Mesothelial Cell Stress Response To Peritoneal Dialysis Fluid 

Michael Lechner (Institute of Analytical Chemistry and Food Chemistry, University of 

Vienna, AUSTRIA), Klaus Kratochwill, Michaela Endemann, Christian Siehs, Kurt R. 

Herkner, Bernd Mayer, Christoph Aufricht, Andreas Rizzi 

Building A Repository Of Validated Mrm-Transitions For Targeted Pathway Biology 

Johan Lengqvist (Karolinska Biomics Center, SWEDEN), Lukas Orre, Janne Lehtiö 

P-MON-291 

Detection Frequency For Peptide Quantitation In Replicate LC-MS Runs 

Kosaku Shinoda, Naoyuki Sugiyama, Masaru Tomita, Yasushi Ishihama (Keio 

University, JAPAN) 

P-MON-292 

Differential Proteome Analysis Using Targeted Label-Free And SDS-PAGE ICPL 

Workflows 

Wolfgang Jabs, Markus Lubeck, Marina Behrens (Bruker Daltonik GmbH, GERMANY), 

Daniel Chamrad, Barbara Sitek, Sebastian Link, Christian Stephan, Kai Stühler, 

Helmut Meyer, Carsten Baessmann 

P-MON-293 

Proteomic Profiling for Human Pancreatic ß-Cell Line RNAKT-15 During Islet 

Formation 

Jonghwa Jin (Seoul National University College of Medicine, KOREA), Yup Kang, 

Heesook Jun, Youngsoo Kim 

90 91

Reagents For Proteomics 

Standards For Clinical Proteomics 

P-MON-304 

P-MON-305 

P-MON-306 

P-MON-307 

P-MON-308 

Withdrawn 

Mining Low Abundant Proteins From Congestive Heart Failure Sera Using 

Affinity Depletion 

Haiying Chen (Agilent Technologies, inc., UNITED STATES), Peter Mrozinski, Nina 

Zolotarjova, James Martosella 

Captureselect Ligands: Depletion Of Abundant Blood Proteins 

Frank Detmers (BAC BV, THE NETHERLANDS) 

DY-Maleimide Labeling: A Time Saving And Easy Handling Quantification Method 

Lisa Dietz (University of Heidelberg, Centre for Medical Research Mannheim, 

Department of Dermatology, Research Group Immunology & Proteomics, 

GERMANY), Patrick Pankert, Alberto Bosque, Stefanie Helm, Alberto Anel, Martina 

Schnoelzer, Hermann-Josef Thierse 

Withdrawn 


P-MON-320 

P-MON-321 

P-MON-322 

Proteome Analysis Of Chronic Wound Fluids Via Mudpit 

Caroline Chojnacki (Ruhr-University-Bochum, GERMANY) 

Quantitative Proteomics Plus Toponomics: Searching For Mamma Carcinoma 

Protein Signatures 

Claudia Peters, Cornelia Koy, Hans Vissers, Marc Kipping, Toralf Reimer, Michael 

Kreutzer, Bernd Gerber, James Langridge, Hans-Jürgen Thiesen, Michael O. Glocker 

(Proteome Center Rostock, University of Rostock, GERMANY) 

The HUPO BPP Wish List 

Michael Hamacher (Ruhr-Universitaet Bochum, Medizinisches Proteom-Center, 

GERMANY), Christian Stephan, Tanja Hardt, Martin Eisenacher, Katrin Marcus, 

Dominic Desiderio, Howard Gutstein, Young Mok Park, Joachim Klose, Helmut E. Meyer 

Statistical Analyses Of Proteomic Data For The Clinical Utility Of Protein 

Biomarkers 

Takao Kawakami (Tokyo Medical University, JAPAN), Atsushi Ogiwara 

P-MON-309 

P-MON-310 

P-MON-311 

P-MON-312 

P-MON-313 

P-MON-314 

P-MON-315 

P-MON-316 

P-MON-317 

P-MON-318 

Withdrawn 

Lys-N Metallopeptidase: A Tool For Straightforward De Novo Peptide Sequencing 

Albert Heck (The Netherlands Proteomics Centre, THE NETHERLANDS), Nadia 

Taouatas, Paul Boersema, Maarten Altelaar, Shabaz Mohammed, Madalina Drugan, 

Bas van Breukelen 

In Situ Proximity Ligation Assay For Detection Of Phosphorylated PDGFRB 

Malin Jarvius (Uppsala University, Molecular Medicine, SWEDEN), Irene Weibrecht, 

Karl-Johan Leuchowius, Ulf Landegren, Ola Söderberg 

Characterization Of Monoclonal Antibodies Specific For K48 Or K63 Poly- 

Ubiquitin Chains 

Jennie R. Lill (Genentech Inc, UNITED STATES), Kim Newton, Marissa Matsumoto, 

Ingrid E. Wertz, Donald Kirkpatrick, Vishva M. Dixit 

Polyclonal Antibody Generation - Correlations With Immunogen Solubility 

Jenny Ottosson (Royal Institute of Technology, SWEDEN), Johanna Steen, Sophia Hober 

Antibody Qa Pipeline For Proteomics Researchers: Nci’s Antibody 

Characterization Program 

Henry Rodriguez (National Cancer Institute/National Institutes of Health, UNITED 

STATES), Mehdi Mesri, Gordon Whiteley, Chris Kinsinger 

Complementary Immobilized Proteases And Ms/Ms Methods Improve Ptm 

Characterization 

Krystal Rampalli, Michael Rosenblatt, Marty Wilkes, Paul Haney, Roger Beringer, 

Andreas Huhmer, John Rogers (Thermo Scientific, UNITED STATES) 

Improved Protein Analysis With The New Mass Spectrometry-Compatible 

Surfactant 

Sergei Saveliev (Promega Corporation, UNITED STATES) 

Evaluating Proteolytic Peptide Characteristics Using Etd For De Novo Sequencing 

Nadia Taouatas (UU, THE NETHERLANDS), Madalina Drugan, Albert Heck, Shabaz 

Mohammed 

An Engineered Fusion Tag For Enhanced Protein Solubilization And Purification 

Marjeta Urh (Promega Corporation, UNITED STATES) 

P-MON-323 

P-MON-324 

P-MON-325 

P-MON-326 

P-MON-327 

P-MON-328 

P-MON-329 

P-MON-330 

Assessment And Development Of Proteomic Technologies For Clinical 

Applications In Cancer 

Christopher R. Kinsinger (NCI/NIH, UNITED STATES), Mehdi Mesri, Henry Rodriguez 

Comparative Proteomics Of The Stress Response Of Primary Omental Cells And 

An Immortalized Mesothelial Cell Line To Peritoneal Dialysis Fluids 

Klaus Kratochwill (Department of Pediatrics, Medical University of Vienna, AUSTRIA), 

Michael Lechner, Thorsten O. Bender, Bernd Mayer, Kurt R. Herkner, Andreas Rizzi, 

Christoph Aufricht 

Withdrawn 

Development Of Mass Spectrometry Protein Standards Using Sequence-Validated 

Human Open Reading Frames 

Mahbod Hajivandi, Thomas Beardslee, Carla Dhillon, Ganin Meredith, R Marshall Pope, 

Paul Predkiu (Invitrogen, UNITED STATES), Alexander Bell 

Absolute Protein Quantification And Traceability To The Si 

Caroline Pritchard (LGC, UNITED KINGDOM), Will Burkitt, Milena Quaglia, Cristian 

Arsene, Andre Henrion, Ruediger Ohlendorf, Gavin O’Connor 

Novel Inactivation Technology Stabilizes The In Vivo Levels Of Proteins, Peptides 

And Phosphorylations In Tissue Samples 

Marcus Svensson (Denator AB, SWEDEN), Mats Borén, Maria Fälth, Per Andrén, 

Per Svenningsson, Karl Sköld 

Proteomic Patterns Predict Acute Graft-Versus-Host Disease – An Intervention Trial 

Eva-Maria Weissinger (Hannover Medical School, Dept. Hematology, Hemostasis, and 

Oncology, GERMANY), Arnold Ganser, Eric Schiffer, Harald Mischak 

Proteomic Approach Of Glomerulus Microdissected From Biopsy Samples Of 

Human Kidney 

Ryo Koda (Department of Structural Pathology, Institute of Neprhology, Niigata 

Graduate Sc / Division of Clinical Nephrology and Rheumatology, Niigata Graduate 

School of Medical and Detal Sciences, JAPAN), Yutaka Yoshida, Izumi Taguchi, 

Masayuki Tasaki, Bo Xu, Ying Zhang, Eishin Yaoita, Ichiei Narita, Fumitake Gejyo, 


92 93

Stem Cell Proteome Biology 

P-MON-331 

P-MON-333 

P-MON-334 

P-MON-335 

P-MON-336 

Manually Curetted Protein Chip Analysis Of Pluripotency-Associated Proteins In 

NIH3T3 Cells 

Kwang-Hyun Baek (Pochon CHA University, KOREA), Brijesh Ajjappala, Bharathi 

Suresh, Jae-Hwan Kim, Eung-Yoon Kim, Incheol Kang 

Dioxin Affects Osteoblast Differentiation From Bone Marrow Stem Cells:a 

Proteomic Study 

Donatella Carpi (Istituto di Ricerche farmacologiche Mario Negri, ITALY), Merja 

Korkalainen, Luisa Airoldi, Roberto Fanelli, Juha Tuukkannen, Matti Viluksela, Roberta 

Pastorelli 

A Proteomics Strategy To Detect Betai Pkc Substrates In Embryonic Stem Cells 

Helio Costa-Juinor (Laboratory of Genetics and Molecular Cardiology Heart Institute 

InCor-HCFMUSP, BRAZIL), Jose Eduardo Krieger, Daria Mochly-Rosen, Deborah 

Schechtman 

Withdrawn 

G-CSF Stimulates Expression Of Non-Phosphorylated Stathmin In Hematopoietic 

Stem Cells 

Thomas Franz (European Molecular Biology Laboratory, GERMANY), Volker Eckstein, 

Xinping Li, Stefan Leicht, Rainer Saffrich, Heinrich Lannert 

P-MON-343 

P-MON-344 

P-MON-345 

P-MON-346 

P-MON-347 

Proteomic Analysis Of Tumorigenic And Non-Tumorigenic Liver Cancer Cells 

Isolated From Huh-7 Cell Line 

Eun-Kyung Lee (Korea University, KOREA), Gi-Yeon Han, Mi-Ryung Kim, Hye Won 

Park, Chan-Wha Kim 

Quantification Of Early Signaling Events In Embryonic Stem Cell Self-Renewal 

Yu Lu, Scott B. Ficarro, Yi Zhang, Manor Askenazi, Elzbieta Hyatt, Leah Boyer, 

Thorsten Schlaeger, Chance John Luckey, Jarrod A. Marto (Department of Cancer 

Biology, Dana-Farber Cancer Institute / Department of Biological Chemistry and 

Molecular Pharmocology, Harvard Medical School, UNITED STATES) 

Proteomic Characterization Of Circulating Human Vascular Progenitors 

Ursula Mayr (Cardiovascular Division, King’s College London, UNITED KINGDOM), 

David Simper, Xiaoke Yin, Carmen Urbich, Anna Zampetaki, Marianna Prokopi, 

Michael Mueller, Ulli Benbow, Robin Wait, Manuel Mayr 

Identification Of New Cell Surface Markers For Human Neural Stem/Progenitor 

Cells 

Aavo-Valdur Mikelsaar (Institute of General and Molecular Pathology, University of 

Tartu/ LabAs Ltd, ESTONIA), Alar Sünter, Peeter Toomik, Kalmer Karpson, Erkki 

Juronen 

Phosphorylation Dynamics During Differentiation Of Embryonic Stem Cells 

Javier Munoz (Utrecht University, THE NETHERLANDS) 

P-MON-337 

P-MON-338 

P-MON-339 

P-MON-340 

P-MON-341 

P-MON-342 

Quantative Proteomics Analysis Of Down Syndrome Using Mouse Es Cell Model 

William Griffiths (School of Medicine, Swansea University, UNITED KINGDOM), Yuqin 

Wang, Dean Nizetic, Jurgen Groet 

Prevention Of Amino Acid Conversion In Silac Experiments With Embryonic 

Stem Cells 

Christopher Hughes (University of Western Ontario, CANADA), Sean Bendall, Gilles 

Lajoie 

The Effect Of Low Glucose On Human Bone Marrow Derived Mesenchymal Stem 

Cells 

Bo Ram Ji (KOREA University, KOREA), Ji Soo Kim, Mi Ryong Kim, Hye Won Park, 

Chan Wha Kim 

Comparative Analysis Of Secretome Of Adipose-Derived Stem Cells During 

Adipogenesis 

Jaeyoon Kim (Division of Molecular and Life Science, Pohang University of Science 

and Technology, KOREA), Yoon Sup Choi, Jae-Ho Kim, Pann-Ghill Suh, Sung Ho Ryu, 

Taehoon G. Lee 

Depot Specific Proliferation-Related Proteins In Bovine Adipose Stromal 

Vascular Cells 

Seulmina Kwon (National Institute of Animal Science, KOREA), Sujin Park, Mirim 

Park, Enjung Jang, Mina Park, Ssanggoo Cho, Dongwoon Kim, sunggoo Hong, 

Hyunjung Lee 

Application Of A Iterative Exclusion (IE)-MS Analysis to Human Embryonic Stem 

Cells 

Gilles Lajoie (University of Western Ontario, CANADA), Sean Bendall, Chris Hughes, 

Mickie Bhatia, Morag Stewart 

P-MON-348 

P-MON-349 

P-MON-350 

P-MON-351 

P-MON-352 

P-MON-353 

Proteomic Analysis Of The Effects Of Bmp4 Exposure On Human Embryonic 

Stem Cells 

Gilbert Omenn (University of Michigan, UNITED STATES), Anastasia Yocum, Theresa 

Gratsch, Nancy Leff, John Strahler, Angela Walker, George Michailidis, K Sue 

O’Shea, Philip Andrews 

Proteomic Analysis Of Bovine Muscle Satellite Cells During Adipogenic 

Differentiation 

Mi-Rim Park (National Livestock Research Institute, KOREA), Su-Jin Park, Seulmina 

Kwon, Eung-Jung Jang, Dong-Woon Kim, Hyun-Jung Lee 

Integrated Approach To Study Protein Expression In Mouse Embryonic Stem Cells 

KS Setty Rakesh, Minoru S.H. Ko, Dawood Dudekula, Ramaiah Nagaraja, 

Ravi Sirdeshmukh (Centre for Cellular and Molecular Biology, INDIA) 

Comparative Proteome And Transcriptome Analysis Of Human, Mouse, And 

Monkey Escs During Differentiation 

Ghasem Salekdeh (Royan Institute, IRAN) 

Studies Of Krab Znf Genes Differentially Expressed In Induced Pluripotent Stem 

Cells (IPS) 

Hans-Juergen Thiesen (Institute of Immunology, University of Rostock, GERMANY), 

Peter Lorenz, Michael Kreutzer, Cristina Al-Khalili Szigyarto, Matthias Uhlén, Guohui 

Ding, Yixue Li 

Comparative Transcriptomics And Proteomics Of Fetal And Adult Human Liver 

Konstantin Yarygin (Institute of Biomedical Chemistry RAMS, RUSSIAN 

FEDERATION), I Cheglakov, L Kurbatov, I Toropygin, A Archakov, G Sukhikh, G 

Vartanian 

94 95

Structural Proteomics 

P-MON-354 

P-MON-355 

P-MON-356 

Characterization Of The Fc And Fab Parts Of Recombinant- And Plasma Derived 

Polyclonal- Antibodies By MALDI Mass Spectrometry 

Omar Belgacem (Shimadzu Biotech, UNITED KINGDOM), Emmanuel Raptakis, Gerald 

Stubiger, Andrea Buchacher, Katharina Pock 

Cross-Linking Analysis Of Affinity-Purified Multi-Protein Complexes 

Zhuo Chen (University of Edinburgh, UNITED KINGDOM), Morten Rasmussen, Salman 

Tahir, Sjaak van der Sar, Kevin G. Hardwick, Juri Rappsilber 

Effects Of Low Ph On Amyloid-Fibrillation Of A Beta2-Microglobulin Variant 

Dorthe Corlin (Statens Serum Institut, DENMARK) 

P-MON-368 

P-MON-369 

P-MON-370 

Specific Enrichment Of Cross-Linked Peptides From Complex Mixtures 

Lau Sennels (Wellcome Trust Centre for Cell Biology, University of Edinburgh, 

UNITED KINGDOM), Adam Belsom, Mark Bradley, Juri Rappsilber 

Membrane Topology Of Monotopic Proteins: Shaving Off Biological Membranes 

Illarion Turko (Center for Advanced Research in Biotechnology, UNITED STATES), 

Natalia Mast, Wei-Li Liao, Irina Pikuleva 

Software Supported Top-Down Protein Sequence Characterization And 

Assignment Of Termini 

Lars Vorwerg, Anja Resemann (Bruker Daltonik GmbH, GERMANY), Detlev Suckau 

P-MON-357 

P-MON-358 

P-MON-359 

P-MON-360 

P-MON-361 

P-MON-362 

P-MON-363 

P-MON-364 

P-MON-365 

P-MON-366 

P-MON-367 

Contribution Of Human Telomerase Processivity To Telomere Length Maintenance 

Yasmin D’Souza (Lady Davis Institute, Jewish General Hospital, CANADA), Sophie 

Dupuis, Chantal Autexier 

Surface Mapping Of Human Cystathionine Beta-Synthase By Chemical 

Modification Of Amino Acids 

Ales Hnizda (Institution of metabolic disorder, 1st Medical Faculty, CZECH REPUBLIC), 

Viktor Kozich 

Rapid Assignment Of Disulfide Linked Peptides Utilizing Automatic A1 Ion Screening 

Sheng Yu Huang (Life Science business unit, C Sun MFG. LTD., TAIWAN), Chien Hsien 

Wen, Ding Tzai Li, Fong Ku Shi 

Caveolar Traffic Of Birch Pollen Allergen Bet V 1 Through Nasal Epithelium In 

Allergic Patients 

Risto Renkonen (Haartman Institute, University of Helsinki, FINLAND), Sakari 

Joenväärä, Pirkko Mattila, Antti Mäkitie, Sanna Salmi, Jutta Renkonen 

IMGT Colliers De Perles For Standardized Analysis Of V, C And G Type Domains 

François Ehrenmann (IMGT, the international ImMunoGeneTics information system, 

FRANCE) 

Conformational Changes In The P22 Portal Observed By Mass Spectrometry 

Kristina Lorenzen (UU, THE NETHERLANDS) 

Beyond Bottlenecks In Membrane Protein Overproduction In Lactococcus Lactis 

Ravi Kanth Reddy Marreddy (University of Groningen, THE NETHERLANDS), Joao 

P.C. Pinto, Eric R. Geertsma, Jan Kok, Bert Poolman 

Monitoring Protein Interactions By Bimolecular Fluorescence Complementation 

And Flow Cytometry 

Montserrat Morell (Institut Biotecnologia i Biomedicina - UAB, SPAIN), Alba 

Espargaro, Francesc Xavier Aviles, Salvador Ventura 

Novel Reagents For Structural Proteomics Crosslinking Applications 

Evgeniy Petrotchenko (UVic-Genome BC Proteomics Center, CANADA), Jamie Thomas, 

Christoph Borchers 

Profiling A Proteome For Hyperstable Proteins And Cellular Processes 

Vesna Prosinecki (Instituto Tecnologia Química e Biológica, Universidade Nova de 

Lisboa, PORTUGAL), Trong Khoa Pham, Phillip C. Wright, Claudio M. Gomes 

Identification Of Cross-Linked Peptides In Proteomic-Scale Experiments 

Juri Rappsilber (University of Edinburgh, UNITED KINGDOM), Morten Rasmussen, 

Salman Tahir, Zhuo Chen 

96 97


Tuesday 19 august 

Alternative Splicing & Protein Processing 

P-TUE-001 

P-TUE-002 

P-TUE-003 

P-TUE-004 

P-TUE-005 

P-TUE-006 

P-TUE-007 

P-TUE-008 

P-TUE-009 

P-TUE-010 

P-TUE-011 

P-TUE-012 

Search For Protein Over-Expression In Micro-Organisms Using Proteomics Tools 

Michiel Akeroyd (Dsm, THE NETHERLANDS) 

Protein N-Alpha-Acetylation Analyzed By N-Terminal Cofradic 

Thomas Arnesen (University of Bergen, NORWAY), Petra van Damme, Bogdan 

Polevoda, Kenny Helsens, Rune Evjenth, Jan Erik Varhaug, Joël Vandekerckhove, 

Johan R. Lillehaug, Fred Sherman, Kris Gevaert 

Withdrawn 

The Ligandome Of Non-Classical Mhc On Tumor Escape Variants 

Arnoud de Ru (Lumc, THE NETHERLANDS), Bianca Querido, Frits Koning, Thorbald 

van Hall, Peter van Veelen 

Isolation Of Protein Isoforms By Free Flow Electrophoresis Preserving Biological 

Activity 

Afsaneh Abdolzade-Bavil (Bd Diagnostics, GERMANY), Christian Obermaier, Siegfied 

Hirler, Ute Sukop, Gerhard Weber, Mikkel Nissum, Christoph Eckerskorn 

Alternative Splicing Of Tissue Factor And enos In Tnf-á Stimulated Human 

Endothelial Cells 

Andreas Eisenreich (Charitè – Universitätsmedizin Berlin, Campus Benjamin Franklin, 

Centrum Für Herz- Und Kreislaufmedizin, GERMANY), Vladimir Bogdanov, Heinz- 

Peter Schultheiss, Ursula Rauch 

Ppr: The Protein Processing Resource 

Niklaas Colaert (Department of Medical Protein Research / Department of 

Biochemistry, Ghent University, BELGIUM), Lennart Martens, Joël Vandekerckhove, 

Kris Gevaert 

The Human Protein Atlas - A Resource For Discovery And Validation Of 

Biomarkers 

Caroline Kampf (Uppsala University, SWEDEN), Anna Asplund, Kenneth Wester, 

Mathias Uhlén, Fredrik Ponten 

Further Improvement Of A Novel Method For C-Terminal Sequence Analysis In 

The Proteomic Era 

Pablo Moerman (Ghent University, BELGIUM) 

Comparison Of Secreted Protein Expression From Hepg2 Cells Exposed To 

2,3,7,8-Tetrachlorodibenzo-P-Dioxin And 2,3,4,7,8-Pentachloro Dibenzofuran 

Sohee Phark (KOREA University, KOREA), Seonyoung Choi, Zhi Zheng, Eunkyoung Jo, 

Min Lee, So-Young Park, Donggeun Sul 

Recipes For Resolved Electrophoresis Gels From Pure Chemicals 

Naziha Chirani (Université Des Sciences Et Technologies De Lille, FRANCE), Caroline 

Tokarski, Christian Rolando 

Targeted Analysis Of Protein Termini 

Bas van Breukelen (Uu, THE NETHERLANDS), Wilma Dormeyer, Shabaz Mohammed, 

Jeroen Krijgsveld, Albert Heck 

P-TUE-013 

P-TUE-014 

Biomarkers Ii 

P-TUE-015 

P-TUE-016 

P-TUE-017 

P-TUE-018 

P-TUE-019 

P-TUE-020 

P-tue-021 

P-TUE-022 

P-TUE-023 

P-TUE-024 

P-TUE-025 

A Proteomics Approach To Identification Of Minor Histocompatibility Antigens 

Peter van Veelen (Lumc, THE NETHERLANDS), Michel Kester, Kees van Bergen, 

Frits Koning, Harm Nijveen, Jack Leunissen, Arnoud de Ru 

Quantitative Glyco-Proteomics Detects Macrophage Release Of Inflammatory 

Mediators Following Activation 

Wei Yan, Ivan Gomez, Zhiyuan Hu, Hamid Mirzaei, Alexander Schmidt, Elaine Raines, 

Reudi Abersold (Institute For Systems Biology, UNITED STATES / Institute of 

Molecular Systems Biology / Faculty of Science, University of Zurich, SWITZERLAND) 

The Comprehensive Proteomic Analyses For The Discovery Of Novel Markers Of 

Alcohol Abuse 

Fumio Nomura (Department of Molecular Diagnosis, Graduate School of Medicine, 

Chiba University, Division of Laboratory Medicine, Clinical Genetics and Proteomics, 

Chiba University Hospital, JAPAN), Kazuyuki Sogawa, Takeshi Tomonaga, Yoshio 

Kodera, Tadakazu Maeda 

Isolation Of Low Molecular Weight Protein In Vitreous Humor Using A Protein 

Separator 

Haru Okamoto (National Tokyo Medical Center, JAPAN), Hiroyuki Shimada, Kiyoshi 

Matsuno, Kazuhiro Tanahashi, Jun Utsumi, Takeshi Iwata 

Withdrawn 

Withdrawn 

Unipep - A Resource For Targeted Biomarker Evaluation In Human Plasma And 

Tissue Samples 

Reto Ossola (Institute of Molecular Systemsbiology, SWITZERLAND), Johan 

Malmstroem, Dave Campbell, Kelly Cooke, Alexander Schmidt, Lars Malmstroem, 

Julian Watts, Ruedi Aebersold, Bruno Domon 

The Number, Composition, And Autoimmunity Of Circulating Microparticles In 

Rheumatoid Arthritis And Systemic Lupus Erythematosus 

Ole Østergaard (Statens Serum InsTitut, DENMARK), Christoffer T. Nielsen, Lone 

Troelsen, Martin R. Larsen, Søren Jacobsen, Niels Heegaard 

Identification Of Hsp 27 As Methylglyoxal Target In Colon Mucosa Of Ulcerative 

Colitis 

Tomoko Oya-Ito (Department of Medical Proteomics, Kyoto Prefectural University 

of Medicine, JAPAN), Yuji Naito, Tomohisa Takagi, Osamu Handa, Hirofumi Matsui, 

Toshikazu Yoshikawa 

Withdrawn 

Depot Specific Expressions Of Proliferation-Related Proteins In Bovine Satellite Cells 

Soo-Jin Park (National Institute of Animal Science, KOREA), Seulmina Kwon, Eun 

Jung Jang, Mi-Rim Park, Dong-Woon Kim, Seung-Gu Hong, Hyun-JeonG Lee 

Elevation Of Complement Component 3 In The Blood Of Autistic Patients 

Traci Pawlowski (Translational Genomics Research Institute (Tgen), UNITED 

STATES), April Allen, Jason Corneveaux, Jennifer Webster, Dietrich Stephan, 

Christopher Smith, Sarah Brautigam, Janet Kirwin, Matthew Huentelman 

Identifying Predictive Biomarkers Of Gastric Cancer Using Ms Profiling And 2-D Dige 

Megan Penno (Adelaide Proteomics Centre, University of Adelaide, AUSTRALIA), 

Matthias Ernst, Peter Hoffmann 

98 99

P-TUE-026 

P-TUE-027 

P-TUE-028 

P-TUE-029 

P-TUE-030 

P-TUE-031 

P-TUE-032 

P-TUE-033 

P-TUE-034 

P-TUE-035 

P-TUE-036 

P-TUE-037 

P-TUE-038 

P-TUE-039 

P-TUE-040 

Plasma Biomarker Discovery In Hepatocellular Carcinoma- A Pilot Case-Control 

Study In The Gambia 

Amelie Plymoth (International Agency for Research on Cancer, FRANCE), Pierre 

Hainaut, Laura Beretta 

Effects Of Organophosphates On Peptide Fraction Of Human Blood Serum 

Ekaterina Podolskaya (Institute for Analytical Instrumentation, Ras, RUSSIAN 

FEDERATION), Vladimir Babakov, Nikolay Goncharov, Lidia Glashkina, Elena Ermolaeva, 

Dariya Prokof’eva, Iliya Krasnov, Nikita Polyakov, Andrey RadiLov, Nikolay Krasnov 

Proteome Analysis Of Lung Squamous Cell Carcinoma Tissue Reveals Hsp47 And 

Cytokeratins As Potential Biomarkers 

Gereon Poschmann (Ruhr-Universität Bochum, GERMANY), Bence Sipos, Anna 

Ulrich, Christian Stefan, Bettina Warscheid, Guenther Kloeppel, Ann Vander Borght, 

Frans Ramaekers, Helmut E. Meyer, Kai Stuehler 

Potential Biomarkers For Early Detection Of Graft-Versus-Host Disease 

Alexandra Kaplanova, Ondrej Sedo, Hana Konecna, Sarka Pospisilova (Center of Molecular 

Biology and Gene Therapy, Department of Internal Medicine - Hematooncology, Medical 

Faculty Mu and University Hospital Brno, CZECH REPUBLIC), Jiri Mayer, Zbynek Zdrahal 

Characterization Of Ptms Of Ttr In Csf From Dementia Patients And Controls 

By Ia-Ms 

Keld Poulsen (Statens Serum Institut, DENMARK), Justyna Bahl, Martin Larsem, 

Niels Heegaard 

Sample Preparation For The Proteomic Analysis Of The Lung Biofluids 

Anne Puustinen (Finnish Institute of Occupational Health, FINLAND) 

Urine Peptidomics With Lc-Ms 

Suvi Ravela (Clinical Chemistry, University of Helsinki, FINLAND), Sakari Joenväärä, 

Risto Renkonen, Ulf-Håkan Stenman, Leena Valmu 

Plasma Protein Profiles In Early Asthmatic Responses To Inhalation Allergen Challenge 

Taiyoun Rhim (Soonchunhyang University Hospital, KOREA), Yun-Sung Choi, Bo-Young 

Nam, Soo Taek Uh, Jongsook Park, Yong Hoon Kim, Choon-Sik Park 

Study Of Protein Biomarker For Diabetes Type 2 In Local Population 

Samreen Riaz (Microbiology & Molecualr Genetics Dept, Punjab Univesrity, Lahore, 

PAKISTAN), Saadia Shahzad Alam, M Waheed Akhtar 

Identification Of Serum Candidate Biomarkers By 2-De And Maldi Tof/Tof Ms 

Maria Stella Ritorto (Fraunhofer Item, GERMANY), Juergen Borlak 

Secretome Analysis Of Human Primary Fibroblasts Undergoing Senescence 

Adelina Rogowska-Wrzesinska (University of Southern Denmark, DENMARK), Lucia 

Miciutkowa, Thomas Diener, Chen Li, Rong Zeng, Pidder Jansen-Dürr, Peter Roepstorff 

Correlation Of Proteomics And Clinical Data Of Patients With Chronic 

Lymphocytic Leukemia 

Jose Cesar Rosa (Fmrp - University of Sao Paulo, BRAZIL) 

Withdrawn 

Search For Multiple Sclerosis Proteomic Biomarkers In Cerebrospinal Fluid By 

Chiplc-Ms 

Therese Rosenling (University of Groningen, THE NETHERLANDS) 

Sensitive And Fast Hepcidin Quantitation From Crude Urine With Maldi Ms 

Udo Roth, Christoph Menzel (Qiagen GmbH, GERMANY), Christian Feckler, Kerstin Steinert 

C. Elegans And Drosophila 

P-TUE-041 

P-TUE-042 

P-TUE-043 

P-TUE-044 

P-TUE-045 

P-TUE-046 

P-TUE-047 

O-Linked N-Acetylglucosamine Modification Regulates Dauer Entry In 

Caenorhabditis Elegans 

Kwang Youl Kim (Department of Biochemistry, Yonsei University, KOREA), Jeeyong 

Lee, Jihyun Lee, Young-Ki Paik 

Withdrawn 

Identification Of Phosphorylcholine Substituted Proteins In Caenorhabditis Elegans 

Julia Grabitzki, Michael Ahrend, Rudolf Geyer, Guenter Lochnit (Institute of 

Biochemistry, University Giessen, GERMANY) 

Proteomic Studies Of Lepidoptera 

Susanne Preiss (Max Planck Institute for Chemical Ecology, GERMANY), Yannick 

Pauchet, Juliette Courtiade, David Heckel 

Comparative Functional Analysis Of The Caenorhabditis Elegans And Drosophila 

Melanogaster Proteomes 

Sabine Schrimpf (University of Zurich; Institute of Molecular Biology, 

SWITZERLAND), Manuel Weiss, Lukas Reiter, Christian Ahrens, Marko Jovanovic, 

Johan Malmström 

Withdrawn 

Pressure-Mediated Sample Preparation Methods For Isolating Proteins From 

Caenorhabditis Elegans 

Gary Smejkal (Pressure Biosciences, UNITED STATES), Jobriah Anderson, W Kelley 

Thomas, Ada Kwan, Greta Carlson, Vera Gross, Alexander Lazarev 

P-TUE-048 Involvement Of Nucleotidyl Transferases In Rnai And Germline Viability In C. 

Elegans 

Josien van Wolfswinkel (Utrecht University, Dept of Biomolecular Mass 

Spectrometry / Hubrecht Institute, Dept of Rna Silencing, THE NETHERLANDS), 

Jeroen Krijgsveld, Abby Dernburg, Albert Heck, Rene Ketting 

Cancer Related Signaling 

P-TUE-049 

P-TUE-050 

P-TUE-051 

P-TUE-052 

Modified Tumor Cell Protein Expression And Modification Under Physiological Oxygen 

Tamara Nyberg (Molecular Probes-Invitrogen, UNITED STATES), Kondala Atkuri, 

Courtenay Hart, Kurosh Ameri, Brian Agnew 

Differential Protein Expression In Activated E2f2-/- T Lymphocyte Non-Cytosolic 

Fraction 

Mikel Azkargorta (Department of Biochemistry and Molecular Biology, University of 

The Basque Country, SPAIN), Kerman Aloria, Ana Zubiaga, Jesus Mari Arizmendi, 

Asier Fullaondo 

Systemic Analysis Of Tgf β; Proteomics Revealed Involvement Of Plag1/Cnk1/ 

Rassf1a/Src Network In Tgf β;1-Dependent Activation Of Erk1/2 And Cell 

Proliferation 

Nimesh Bhaskaran (Karolinska Biomics Center, Department of Oncology-Pathology, 

Karolinska Institutet, Karolinska University Hospital, SWEDEN), Serhiy Souchelnytskyi 

Detection Of Protein Signatures Associated With Tumor Cell Dissemination In 

Oral Cancer 

Onno Bleijerveld (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht 

University, THE NETHERLANDS), Ruud Brakenhoff, Mirjam Damen, Maarten Altelaar, 

Albert Heck, Rene Leemans, Monique Slijper 

100 101

P-TUE-053 

P-TUE-054 

P-TUE-055 

Induction Of Apoptosis In Jeko-1 Mantle Cell Lymphoma Cell Line By Resveratrol: 

A Proteomic Analysis 

Daniela Cecconi (University of Verona, Dip. Scientifico e Tecnologico, Laboratorio di 

Proteomica, ITALY), Alberto Zamò, Alice Parisi, Elena Bianchi, Claudia Parolini, Anna 

Maria Timperio 

Differentially Expressed Phosphorylated Proteins In Gastrointestinal Stromal 

Tumors According To Kit And Pdgfra Mutation 

Hee-Jung Choi (Department of Pathology / Brain Korea 21 Project for Medical 

Sciences, Yonsei University College of Medicine, KOREA), Hyun Ju Kang, Hanna Lee, 

Yeong Hee Ahn, Jong Shin Yoo, Hoguen Kim 

Proteome Analysis Of Human Ovarian Cancer Cells To Identify Tubb3 Protein 

Complexes 

Lucia Cicchillitti (“John Paul Ii ” Centre for High Technology Research and Education 

in Biomedical Sciences, Catholic University, Campobasso, ITALY) 

P-TUE-065 

P-TUE-066 

P-TUE-067 

P-TUE-068 

Functional Proteomics: Bisphenol A Disrupts The Mammary Proteome 

Sarah Jenkins (University of Alabama at Birmingham, Department of Pharmacology 

& Toxicology, UNITED STATES), Nandini Raghuraman, Coral Lamartiniere 

Dynamics Of Protein Nitration In The Cell Cycle 

Min Jia (Karolinska Biomics Center, THE NETHERLANDS) 

Combining Formaldehyde-Based Affinity Enrichment And Global Silac To Study 

Cdc42 Activity 

Juergen Kast (University of British Columbia, CANADA), Brent W. Sutherland 

Non-Histone Nuclear Factor Hmgb1 Is Secreted Through The Nuclear Pkc-Δ 

Mediated Phosphorylation 

Hanna Lee, Hyun Ju Kang, Hee-Jung Choi, Yeong-Hee Ahn, Hoguen Kim (Department 

of Pathology / Brain Korea 21 Project for Medical Sciences, Yonsei University College 

of Medicine, KOREA) 

P-TUE-056 

P-TUE-057 

AnaLysis Of Trail Resistance In Human Melanoma Cells Using Dige 

Ben Crossett (University of Sydney, AUSTRALIA), Eva Yang, Xu Dong Zhang, Peter 

Hersey, Richard Christopherson 

Proteome Profiling Of Neuroblastoma Resistant Cell Line By 2de And Label-Free 

Lc-Ms 

Simona D’aguanno (Dipartimento di Medicina Interna Università di Tor Vergata Rome/ 

Irccs-Fondazione Santa Lucia Centro di Ricerca Sul Cervello, ITALY), Annamaria 

D’alessandro, Luisa Pieroni, Sergio Bernardini, Giorgio Federici, Andrea Urbani 

P-TUE-069 

P-TUE-070 

Subnuclear Proteomics Through Differential Extraction Of Colorectal Cancer 

Tissue 

Jakob Albrethsen, Jaco Knol (Oncoproteomics Laboratory, VUmc-Cancer Center 

Amsterdam, THE NETHERLANDS), Sander Piersma, Meike de Wit, Sandra Mongera, 

Beatriz Carvalho, Gerrit Meijer, Connie Jimenez 

Interaction Of The Corepressor Alien With E2f/Rb Pathway 

Robert Kob (Institute of Human Genetics and Anthropology, GERMANY), Juliane 

Kelm, Aria Baniahmad, Ferdinand von Eggeling, Christian Melle 

P-TUE-058 

P-TUE-059 

P-TUE-060 

The Proteomic Analysis Of B Cell Signaling In Chronic Lymphocytic Leukaemia 

Gina Eagle (Cancer Biology Proteomics Group, Post Graduate Medical Institute 

of the University of Hull in Association with the Hull York Medical School, UNITED 

KINGDOM), David Allsup, Lynn Cawkwell 

New Functions Of P16ink4a Using A Proteomic Approach 

Josep M. Estanyol (University Of Barcelona, SPAIN) 

Protein And Peptide Profiling Of Fresh Human Breast Cancer Tumours 

Christina Greenwood (Helen RollaSon Heal Cancer Research Laboratory, Anglia 

Ruskin University, UNITED KINGDOM), Gergana Metodieva, Louise Alldridge, Laura 

Thwaites, Khalid Al-Janabi, Metodi Metodiev 

P-TUE-071 

P-TUE-072 

P-TUE-073 

Human Prostate Cancer Progression: A Complete Proteomic Analysis 

John Lapek (Proteomics Center, University of Rochester, UNITED STATES), Lauren 

Jensen, William Ricke, Alan Friedman 

Use Of Peptide Ief-Lc-Ms/Ms Reveals Proteome Components Involved In Lung 

Cancer Therapy Response 

Janne Lehtiö (Karolinska Institutet, SWEDEN), Lukas Orre, Johan Lengqvist, Hanna 

Eriksson, Bengt Persson, Per-Johan Jakobsson, Rolf Lewensohn 

Proteomics Approaches For Studying Molecular Mechanism Of Invasion Of Highly 

Invasive Clones Of Mcf-7 Human Breast Carcinoma 

Kah-Wai Lin (Karolinska Biomics Center, SWEDEN), Serhiy Souchelnytskyi 

P-TUE-061 

P-TUE-062 

P-TUE-063 

P-TUE-064 

Whole-Celss Proteome Analysis Of The Mtor Signaling Using 2d Digest-Lc-Ms/ 

Ms And Index-T 

Sang Hoon Ha (Sigmol Inc., KOREA), Yoen-Young Yoo, Pann-Ghill Suh, Sung Ho Ryu, 

Taehoon Lee 

Target Proteins Of Lps-Stimulated Lipid Accumulation Regulated By Thiol- 

Antioxidant Thioredoxin 

Gi-Yeon Han (Korea University, KOREA), Eun-KYung Lee, Hye-Won Park, Hyun-Ji Lee, 

Eun-Jeong So, Won-A Joo, Yoon-Ha Kim, Jun-Seop Shin, Mi-Ryung Kim, Chan-Wha 

Kim 

Effects Of Microenvironment On Tumor Growth: A Comparative Proteomics 

Approach 

Sen-Yung Hsieh (Chang Gung Memorial Hospital, TAIWAN), Ying-Chin Chen 

Metastasis-Associated C4.4a, A Gpi-Anchored Protein Cleaved By Adam10 And 

Adam17 

Cary Esselens, Jordi Malapeira, Nuria Colome, Joaquin Arribas, Francesc Canals, 

Wolfgang Jabs (Bruker Daltonik GmbH, GERMANY), Detlev Suckau, Carsten 

Baessmann 

P-TUE-074 

P-TUE-075 

P-TUE-076 

P-TUE-077 

Discovery Of Pra1-Associated Dysregulated Proteins By Itraq And 

Multidimensional Lc-Ms/Ms 

Hao-Ping Liu (Institute of Basic Medical Science, Chang Gung University, TAIWAN) 

Exploration Of The Cathepsin D Protein Complexes In Senescent Pathways 

Xiaomin Lou (Beijing Genomics Institute, Chinese Academy of Sciences / Beijing 

Proteomics Institute, CHINA), Ju Zhang, Maomao Sun, Siqi Liu, Ningzhi Xu 

Down-Regulation Of Ptk6 In Breast Cancer Cell Lines For Identification Of Novel 

Therapy Targets 

Natalie Ludyga (Helmholtz Zentrum München - German Research Center for 

Environmental Health, GERMANY), Manuela Ram, Natasa Anastasov, Ulrike Reich, 

Heinz Höfler, Michaela Aubele 

Identification Of Proteins Targeted By Apc/C-Cdh1 During Mitosis Exit By Silac 

Jose L. Luque-Garcia (Protein Technology Unit. Spanish National Cancer Research 

Center (Cnio), SPAIN), Eusebio Manchado, Marcos Malumbres, Ignacio Casal 

102 103

P-TUE-078 

P-TUE-079 

P-TUE-080 

P-TUE-081 

P-TUE-082 

P-TUE-083 

P-TUE-084 

P-TUE-085 

P-TUE-086 

P-TUE-087 

P-TUE-088 

P-TUE-089 

Proteome And Phosphoproteome Dynamics In Human Cells Upon Inhibition Of 

Hsp90 

Boris Macek (Mpi for Biochemistry, Dept. of ProteoMics and Signal Transduction, 

GERMANY), Martin Vabulas, Chanchal Kumar, Florian Gnad, Ulrich Hartl, Matthias 

Mann 

Proteomic Analysis Of The Interacting Partners Of The Spindle Checkpoint 

Protein Bub3 

Alessio Maiolica (European Institute of Oncology Ieo, ITALY), Silvia Monzani, Paolo 

Soffientini, Andrea Musacchio 

Far Upstream Element Binding Protein-1, A C-Myc Transcription Factor, Is 

Cleaved By Caspases During Apoptosis 

Jang Mi (KOREA) 

Proteomic Analysis Of TransforminG Growth Factor Beta Signaling In Colon 

Cancer Cells 

Naveid Ali, Karlie Nielson, Mark Molloy (Macquarie University, AUSTRALIA) 

Withdrawn 

Indoor Air Exposure Of Volatile Organic Compounds On Human Alveolar Cells 

Nora Mörbt (Department of Proteomics, Helmholtz-Centre for Environmental 

Research, GERMANY), Frank Schmidt, Ralph Feltens, Carmen Röder-Stolinski, 

Gundula Fischäder, Irina Lehmann, Martin Von Bergen 

Complex Formation Between S100a11 And Rad54b At Dna Damage Sites 

Ulrike Murzik (Institute of Human Genetics and Anthropology, Medical Faculty, 

Friedrich-Schiller-University, GERMANY), Peter Hemmerich, Juliane Jung, Ferdinand 

von Eggeling, Christian Melle 

Proteomics Of Pcna: Cell Transformation Is Accompanied By Up-Regulation Of 

Pcna Without Post-Translational Modifications 

Stanislav Naryzhny (Hrsrh, CANADA), Hoyun Lee 

Label-Free Proteome Profiling Of Archival Childhood Brainstem Tumors 

Javad Nazarian (Children’s National Medical Center, UNITED STATES), Brian Halligan, 

Mariarita Santi, Tobey Macdonald, Yetrib Hathout 

Novel Functional Approach Combining Reverse Phase Protein Micorarrays 

(Rpma) And 3d Ex-Vivo Tissue Cultures: Expression Analysis Of Apoptosis- 

Related Proteins In Human Colon Cancer And Response To Chemotherapeutic 

Treatment 

Michael Pawlak (Nmi Natural and Medical Sciences Institute, GERMANY), Gerhard 

G. Thallinger, Markus F. Templin, Markus Borner 

Secreted Proteins Of Malignant Breast Cells Coordinate Angiogenesis Through 

Ecm Degradation 

Xiquan Liang, Jarkko Huuskonen, Mahbod Hajivandi, Paul Predki, Marshall Pope 

(Invitrogen, UNITED STATES) 

Protein Expression Analysis By 2d-Dige Of Different Areas Of Gbm From 

Patient Biopsies 

Roberto Raggiaschi (Siena Biotech S.P.A., ITALY), Silvia Matteoni, Annunziato 

Mangiola, Letizia Magnoni, Stefano Gotta, Andreas Kremer, Marco Rossi, Silvia 

Valensin, Annette Bakker 

P-TUE-090 

P-TUE-091 

P-TUE-092 

P-TUE-093 

P-TUE-094 

P-TUE-095 

P-TUE-096 

P-TUE-097 

P-TUE-098 

P-TUE-099 

P-TUE-100 

Search For Markers Predicting The Cisplatin Chemosensitivity In Large-Cell 

Neuroendocrine Carcinoma 

Yuichi Sato (Department of Molecular Diagnostics, Kitasato University School of Allied 

Healh Scinences / Department f Molecular Diagnostics, Kitasato University Graduate 

School of Medical Siences / Center for Disease Proteomics, Kitasato University 

School of Science, JAPAN), Taihei Kageyama, Ryo Nagashio, Toshihide Tatsumoto, 

Mihoko Ohnishi, Yoshio Kodera, Tadakazu Maeda, Shi-Xu Jiang, Isao Okayasu 

Macrophage-Differentiating Factors Of Cancer Cell Lines Studied By Secretome 

Profiling 

Silvia Schiarea (Istituto di Ricerche Farmacologiche Mario Negri, ITALY), Paola 

Allavena, Graziella Solinas, Roberto Fanelli, Chiara Chiabrando 

Spink3 Is An Indicator Of Erbeta Negative, Poorly Differentiated Prostatic 

Epithelium 

Thomas Schwend (Karolinska Institute, SWEDEN), Otabek Imamov, Thomas Ruppert, 

Linda Waage, Ulf Bergerheim, Jan-Ãke Gustafsson 

From Proteomics To Molecular Targets For Elimination Of Apoptosis-Resistant 

Leukemic Cells 

Tereza Simonova (Department Of Pathophysiology, First Faculty Of Medicine, Charles 

University, CZECH REPUBLIC), Ondrej Toman, Petr Halada, Pavel Klener, Jan Zivny, 

Jiri Petrak 

Identification Of Holliday Junction (Hj) Processing Enzymes In Human Cells 

J Mark Skehel (Cancer Research Uk, UNITED KINGDOM), Stephen Ip, Helen Flynn, 

Simon Swindell, Mark Pitman, Stephen West 

Proteomics Of Breast Cancer: Systemic Analysis Of Various Datasets To Identify 

Markers And Drug Targets 

Serhiy Souchelnytskyi (Karolinska Biomics Center, SWEDEN) 

Quantitative Proteome And Phosphoproteome Analysis Of Fasl/Trail-Induced 

Apoptosis 

Gabriele Stoehr (Department of Proteomics and Signal Transduction, Max Planck 

Institute for Biochemistry, GERMANY), Chunaram Choudhary, Boris Macek, 

Matthias Mann 

Identification Of P53 Interacting Proteins In Nasopharyngeal Carcinoma Cells By 

Proteomics Analysis 

Yi Sun (Key Laboratory of Cancer Proteomics of Chinese Ministry of Health, 

Xiangya Hospital / Cancer Research Institute, Xiangya School of Medicine / Human 

Reproductive and Stem Cell Engineering Institute, CHINA), Zhi-Qiang Xiao, Zhu-Chu 

Chen, Mao-Yu Li 

Tissue Transglutaminase 2 Could Be A Novel Candidate Of Hepatocellular Carcinoma 

Yilin Sun (State Key Labotatory of Molecular Oncology, Cancer Institute & Hospital, 

Chinese Academy of Medical Sciences, CHINA), Wei Mi, Jianqiang Cai, Wantao Ying, 

Fang Liu, Lei Li, Wei Jia, Lanping Zhou, Xinyu Bi, Haizhen Lu 

Escape Mechanisms In Metronomic Cyclophosphamide Therapy In Vivo 

Lilja Thoenes (Lmu Munich, GERMANY), Michael Guenther, Manfred Ogris, Georg J. 

Arnold, Ernst Wagner 

Silencing Bcl-2 In Mantle Cell Lymphoma 

Catherine Tucker (Department of Advanced Therapeutics / DepartMent of Pathology 

and Laboratory Medicine, CANADA), Anita Kapanen, Ghania Chikh, Brad Hoffman, 

Alastair Kyle, Ian Wilson, Dana Masin, Randy Gascoyne, Marcel Bally, Richard Klasa 

104 105

P-TUE-101 

P-TUE-102 

Characterisation Of Signal Transduction Complexes Associated With The C-Kit 

Receptor 

Jurjen van Bolhuis (Erasmus University Mc, THE NETHERLANDS) 

Proteomic Profiling Of Glioblastoma Cells Following mir-21 Knockdown 

Matthew Willetts (Applied Biosystems, UNITED STATES), Marjorie Minkoff, Thales 

Papagiannakopoulos, Kenneth Kosik, Phil Ross, Darryl Pappin 

Chemical Proteomics 

P-TUE-111 

Selectivity In Enrichment Of Pka And Their Interactors Using Modified Affinity 

Resins And Chemical Proteomics 

Thin Thin Aye (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht 

University; Department of Medical Physiology, University Medical Centre, THE 

NETHERLANDS) 

P-TUE-103 

Ca11, An Autocrine Protein In Gastric Epithelium, Plays A Role In Regulation Of 

Cell Cycle 

Rui Xing (Beijing Genomics Institute, Cas, CHINA), Jun Zhang, Bin Kang, Siqi Liu, 

Youyong Lu 

P-TUE-112 

A Chemical Proteomics Approach For Assessing Target Selectivity Of Kinase 

Inhibitors 

Marcus Bantscheff (Cellzome Ag, GERMANY), Dirk Eberhard, Friedrich Reinhard, 

Carsten Hopf, Ulrich Kruse, Bernhard Kuster, Gerard Drewes 

P-TUE-104 

P-TUE-105 

Phosphorylation Of Eef1a1 By Tgf-Beta Receptor 

Ihor Yakymovych (Karolinska Biomics Center, Department of Oncology-Pathology, 

Karolinska University Hospital, SWEDEN), Mariya Yakymovych, Serhiy Souchelnytskyi 

Cross-Link Of Proteome With Transcriptome For Metastasis Hcc 

Pengyuan Yang (Institutes for Biomedical Sciences and Research Institute for Liver 

Cancer, Fudan Uni Shanghai, CHINA) 

P-TUE-113 

P-TUE-114 

Fast Enzymatic Protein Digestion: Microwave Versus Ultrasonication 

Jose-Luis Capelo-Martínez (New University of Lisbon, Portugal) 

Proteomics Of Stressed Chondrocytes To UndersTand Mechanisms Of Skeletal 

Dysplasia 

Wai Ling Chan (The University of Hong Kong, CHINA), Danny Chan, Stephen Lee, Kse 

Cheah, Julian A. Tanner 

P-TUE-106 

P-TUE-107 

Proteomics Analysis Of Anti-Cancer Activity Of Luteolin In Human Hepatoma 

Huh-7 Cells 

Dong-Ryeol Yoo (Gachon University of Medicine and Science, KOREA), Young-Keul 

Jeon, Yun-Ho Jang, Dong-Jin Yim, Ju-Yeon Kim, Won Jeon, Chae-Jun Lim, Myeong-Jin 

Nam 

Proteome Profiling Of Human Breast Cancer (Case Studies) 

Olena Zakharchenko (Karolinska BIomics Center, SWEDEN) 

P-TUE-115 

P-TUE-116 

Fluorescein As A Versatile Tag For Enhanced Selectivity In Analyzing Cysteine- 

Containing Proteins/Peptides Using Mass Spectrometry 

Shu-Hui Chen, Jue-Liang Hsu, Fong-Sian Lin, Pai-Chiao Cheng (Department of 

Chemistry, National Cheng Kung University, TAIWAN) 

Modified Au Nanoparticles For Resolving Protein Complexes Related To Estrogen 

Action 

Pai-Chiao Cheng (National Cheng Kung University, TAIWAN) 

P-TUE-108 

P-TUE-109 

P-TUE-110 

Mapping The Melanoma Phosphoproteome By High Resolution Mass 

Spectrometry 

Sara Zanivan (Max-Planck Institute for Biochemistry, Dept of Proteomics and Signal 

Transduction, GERMANY), Sara Wickström, Tami Geiger, Juergen Cox, Florian Gnad, 

Boris Macek, Reinhard Fässler, Matthias Mann 

Exploring The Functions Of Bag2 Complexes In Cell Senescence 

Ju Zhang (Beijing Genomics Institute, Chinese Academy of Science / Beijing 

Proteomics Institute, CHINA), Xiaomin Lou, ShanGbin Yang, Siqi Liu, Ningzhi Xu 

The Interaction Of Mawbp/Mawd Is Likely Involved In Tgf-Beta Signaling 

Pathway 

Jun Zhang (Beijing Genomics Institute, Chinese Academy of Sciences / Beijing 

Proteomics Institute, CHINA), Bin Kang, Rui Xing, Ningzhi Xu, Siqi Liu, Youyong Lu 

P-TUE-117 

P-TUE-118 


P-TUE-120 

Withdrawn 

Assessing Dynamic Change Of Protein S-Nitrosylation By Label-Free 

Quantitative Proteomics 

Hsiao-Chiao Chou (Department of Chemistry, National Taiwan University, TAIWAN), 

Yi-Ju Chen, Wei-Chi Ku, Yu-Ju Chen 

Using Chemical Proteomics And Peptide Disrupters Technology To Evaluate Ri 

And Rii Specific Akaps 

Alessandro Cuomo (Ceinge Biotecnologie Avanzate, °S.E.M.M. -European School of 

Molecular Medicine, ITALY) 

Quantitative Chemical Proteomics: A Tool For Investigating (Off-) Target Binding 

Poupak Dadvar (Utrecht Institute for Pharmaceutical Sciences, THE 

NETHERLANDS), Arjen Scholten, Shabaz Mohammed, Bas Breukelen, Klaus Rumpel, 

Albert Heck 

P-TUE-121 

Functionality Directed Reduction Of Proteome Complexity 

Christian Dalhoff (Caprotec Bioanalytics GmbH, GERMANY), Peter Poot, Michael 

Hüben, Thomas Lenz, Christian Jurinke, Elmar Weinhold, Hubert Köster 

P-TUE-122 

Chemical Proteomics Strategy Reports On Proteasome Activity In Living Cells 

Bogdan (Bobby) Florea (Dept of Bio-Organic Chemistry, Leiden Institute of 

Chemistry, Leiden University, THE NETHERLANDS) 

P-TUE-123 

The Two Phase Partitioning System For Purification Of C. Glutamicum Membrane 

Proteins 

Benjamin Fränzel, Dirk Wolters (Analytical Chemistry, Ruhr University Bochum, 

GERMANY) 

106 107

P-TUE-124 

Functionalized Succinylhydroxamate Peptide Inhibitors For Activity-Based 

Enrichment Of Mmps/Adams 

Paul Geurink (Leiden University, THE NETHERLANDS), Theo Klein, Gijs van der Marel, 

Rainer Bischoff, Herman Overkleeft 

Computational Approaches To Mine Proteomic Data 

P-TUE-136 

Systems Biology For Compound And Protein Classification, And Interaction Mapping 

Ken Aoshima (Eisai Co., Ltd., JAPAN), Yoshiya Oda, Yuji Miura, Masumi Takahashi 

P-TUE-125 

P-TUE-126 

P-TUE-127 

P-TUE-128 

P-TUE-129 

Withdrawn 

Affinity Pull-Down Of Metalloproteases From Arabidopsis Thaliana 

Janina Lenger (Bioorganic Chemistry, Department of Chemistry, Bielefeld University, 

GERMANY), Jens Conradi, Hannes Patrik Plattner, Karl-Josef Dietz, Norbert Sewald 

Detection Of Galectin-3 By The Use Of Chemical Probes 

Monique van Scherpenzeel (Uu, THE NETHERLANDS), Rob M.J. Liskamp, Roland J. 

Pieters 

Ultrasonic Assisted Enzymatic Protein Digestion Kinetic Studies 

Carlos Lodeiro (Requimte- Chemistry Department, Faculty of Science and 

Technology, University Nova of Lisbon, Monte de Caparica, Portugal), Diana V. Vieira, 

Hugo M. Santos, Issa Isaac, José Luis Capelo 

Protein Kinase C Microarray Profiling To Design Isozyme Selective Inhibitors 

Alex J. Poot (Utrecht University, THE NETHERLANDS), Jeroen Ameijde, Rob 

Ruijtenbeek, Riet Hilhorst, Monique Slijper, Dirk T.S. Rijkers, Rob M.J. Liskamp 

P-TUE-137 

P-TUE-138 

P-TUE-139 

P-TUE-140 

Postman, A New Tool For Comparative Lc-Ms In Ptm Detection 

Magnus Arntzen (Probe Proteomic Unit, Department of Biomedicine, University of 

Bergen, NORWAY), Christoffer Osland, Christopher Raa, Maria Ekman, Burkhard 

Fleckenstein, Aurelia Lewis, Clive Dsantos 

Of Planets And Portability: A Common Api For Desktop Proteomics Data Analysis 

Manor Askenazi (Dana-Farber Cancer Institute, UNITED STATES), Jignesh Parikh, 

Tanya Cashorali, Scott Ficarro, Yi Zhang, Nathaniel Blank, Jarrod Marto 

Close Correlations Between Transcript And Proteome Expression Of Gene- 

Protein Pairs Across Heart- And Skeletal Muscle 

Emøke Bendixen (University of Århus, DENMARK), Frank Panitz, Henrik Hornshøj, 

Lene Conley, Pernille Andersen, Jakob Hedegaard, Christian Bendixen 

Increase Identification Rate By Combining On-The-Fly Spectral Library And 

Sequence Searches 

Erik Ahrne, Markus Müller, Pierre-Alain Binz, Alexandre Masselot, Frederique Lisacek 

(Swiss Institute of Bioinformatics, Proteome Informatics Group, SWITZERLAND) 

P-TUE-130 

P-TUE-131 

Proteomic Analysis Of Macrophages Stimulated By Lipopolysaccharide And 

Treated With Celecoxib As Selective Cox-2 Inhibitor 

Mona Salimi (Research & Development Center, Pasteur Institute of Iran, Karaj, 

IRAN), Faegheh Rezaee, Soudabeh Akbarzadeh, Mohammad Hossein Ghahremani, 

Behrouz Vaziri 

Desalting Free Ultrasonic-BaSed Method For Protein Identification By Pmf 

Hugo Miguel Santos (Requimte - Chemistry Department Fct-Unl, PORTUGAL), 

Cristiano Mota, Isabel Moura, Carlos Lodeiro, Issa Isaac, José-Luis Capelo 

P-TUE-141 

P-TUE-142 

On The Stability Of Peptide Identifications When Looking At Variations In 

Ms/Ms Spectra 

Markus Müller, Pierre-Alain Binz, David Bouyssié, Frederique Lisacek, Olivier Philippe 

(Geneva Bioinformatics (Genebio), SWITZERLAND) 

Classification Using A 1d Representation Of Lc-Ms Data 

Tom Bloemberg (Analytical Chemistry - Institute for Molecules and Materials - 

Radboud University Nijmegen, THE NETHERLANDS), Jolein Gloerich, Hans Wessels, 

Wendy Pluk, Ron Wehrens, Lambert van den Heuvel, Lutgarde Buydens 

P-TUE-132 

Paired Stable Isotope Metabolic Tracers: A Novel Approach For Discovery Of 

Drug Metabolites 

Nicolas A.S. Stewart (University of Pittsburgh, UNITED STATES), Jennifer N. 

Sutton, Brian L. Hood, Raman Venkataramanan, Michael Athanas, Robert A. Branch, 

Thomas P. Conrads 

P-TUE-143 

Icplquant - A New Software Tool For Isotope-Labelling Based Proteomics And 

Biomarker Discovery 

Achim Brunner (Max-Planck Institute of Biochemistry, Martinsried, GERMANY), 

Eva-Maria Keidel, Monica Zobawa, Silke Martin, Michael Kersten, Josef Kellermann, 

Friedrich Lottspeich 

P-TUE-133 

P-TUE-134 

P-TUE-135 

Probing Proteasome Regulation 

Wouter van der Linden (Biosyn Leiden University, THE NETHERLANDS), Martijn 

Verdoes, Bobby Florea, Gijsbert van der Marel, Herman Overkleeft 

Chemical Tools To Probe The Proteasome 

Martijn Verdoes (Bioorganic Synthesis, Leiden Institute of Chemistry, THE 

NETHERLANDS), Bogdan Florea, Ulrik Hillaert, Wouter van der Linden, Lianne 

Willems, Myra Sae-Heng, Gijsbert van der Marel, Herman Overkleeft 

The Synthesis And Biological Evaluation Of Peptide N-Glycanase Inhibitors 

Martin D. Witte (Bioorganic Synthesis, Leiden Institute of Chemistry, THE 

NETHERLANDS), Bogdan I. Florea, Gijsbert van der Marel, Herman S. Overkleeft 

P-TUE-144 

P-TUE-145 

P-TUE-146 

P-TUE-147 

Withdrawn 

The Gene Ontology Annotation (Goa) Project At The Ebi 

Emily Dimmer (European Bioinformatics Institute, UNITED KINGDOM), Rachael 

Huntley, Daniel Barrell, David Binns, Claire O’Donovan, Rolf Apweiler 

Identification And Quantification Of Endogenous Peptides In A Model Of 


Maria Falth (Uppsala University, SWEDEN), Anna Nilsson, Kim Kultima, David Fenyö, 

Per Svenningsson, Per Andren 

On The Peptide Fragment Mass Information Required To Identify Peptides 

David Fenyo (The Rockefeller University, UNITED STATES), Elena Ossipova, Jan Eriksson 

P-TUE-148 

Keynode AnaylysiS ¡V Method To Identify Potential Biomarkers For Dominant 

Signaling Pathways 

Yi Man Eva Fung (Division of Molecular Biometry, Institute for Cell and Molecular Biology, 

Uppsala University, SWEDEN), Roman A. Zubarev, Peter Bergsten, Hanna Nyblom 

108 109

P-TUE-149 

Machine Learning-Based Membrane Protein Identification 

Tejas Gandhi (Membrane Enzymology Group / Groningen Bioinformatics Center, 

University of Groningen, THE NETHERLANDS), Bert Poolman, Hjalmar Permentier, 

Rainer Brietling 

P-TUE-162 

Probability Assignment And Protein Inference For Accurate Mass And Time 

Analysis 

Damon May (Fred Hutchinson Cancer Research Center, UNITED STATES), Yan Liu, 

Wendy Law, Martin Mcintosh 

P-TUE-150 

P-TUE-151 

P-TUE-152 

P-TUE-153 

Withdrawn 

Peptizer: A Rule-Based Bioinformatics Tool To Select Suspicious Peptide 

Identifications 

Kenny Helsens (Department of Medical Protein Research/ Department of 

Biochemistry, Ghent University, BELGIUM), Evy Timmerman, Joël Vandekerckhove, 

Kris Gevaert, Lennart Martens 

A Machine Learning Approach For Ranking Of Proteotypic Peptides For Ms 

Carsten Henneges (Wilhelm-Schickard-Institute / Computerarchitecture, 

GERMANY), Georg Hinselmann, Johannes Madlung, Stephan Jung, Tobias 

Lamkemeyer, Alfred Nordheim, Andreas Zell 

Withdrawn 

P-TUE-163 

P-TUE-164 

P-TUE-165 

New Developments For Open-Source Shotgun Proteomics Analysis With The 

Trans-Proteomic Pipeline 

Luis Mendoza (Institute for Systems Biology, UNITED STATES), Joshua Tasman, 

David Shteynberg, James Eddes, Brian Pratt, Eric Deutsch, Chee-Hong Wong, 

Henry Lam, Jimmy Eng, Ruedi Aebersold 

Identifying Unexpected Modifications Using Accurate Mass Ms And A New 

Search Algorithm 

Christine A. Miller (Agilent Technologies, UNITED STATES), David M. Horn, Joseph C. Roark 

Analysis Of Peak Intensity Correlations To Improve Diagnostic Accuracy And Maximize 

Biological Meaning Of Mass-Spectral Diagnostics Of Ovarian And Prostate Cancer 

Sergey Moshkovskiy (Institute of Biomedical Chemistry Rams, RUSSIAN FEDERATION), 

M Vlasova, M Pyatnitsky, I ToropygIn, A Archakov 

P-TUE-154 

P-TUE-155 

P-TUE-156 

P-TUE-157 

P-TUE-158 

P-TUE-159 

P-TUE-160 

P-TUE-161 

Proteomedigger: A Versatile Disease Proteome Database And Analysis Platform 

For The Discovery Of Plasma-Localized Cancer Biomarkers. 

Seul-Ki Jeong (Department of Biochemistry, Yonsei Proteome Research Center and 

Biomedical Proteome Research Center, KOREA), Min-Seok Kwon, Eun-Young Lee, 

Sang Yun Cho, Hoguen Kim, Gilbert S. Omenn, Ruedi Aebersold, Young-Ki Paik 

Calculation Of Unique Peptide Sequences For Unambiguous Identification Of 

Highly Homologous Proteins 

Michael Kohl (Medizinisches Proteom Center, GERMANY), Gorden Redlich, Martin 

Eisenacher, Anke Schnabel, Katrin Marcus, Helmut E. Meyer, Christian Stephan 

Consensus Predictors For Peptide Detectability 

King Wai Lau (Faculty of Life Sciences, University of Manchester, UNITED 

KINGDOM), Claire Eyers, David Wedge, Simon Gaskell, Simon J Hubbard 

Pnmerge: A Novel Cytoscape Plugin To Merge The Biological Pathway And 

Protein Networks 

Hanchang Sun, Dong Li (The State Key Laboratory of Proteomics, Beijing Proteome 

Research Center, Beijing Institute of Radiation Medicine, CHINA), Jian Wang, 

Hongwei Xie, Yunping Zhu, Fuchu He 

Comparative Analysis Of Various Parsimony Methods And Its Influence Factors 

For Protein Inference In Shotgun Proteomics 

Ning Li (State Key Laboratory of Proteomics, Beijing Proteome Research Center, 

Beijing Institute of Radiation Medicine, CHINA), Songfeng Wu, Yunping Zhu, Fuchu He 

A Missing Piece In Proteomics Identification Task: The Protein Family Tree 

Michal Linial (The Hebrew University of Jerusalem, Israel), Menachem Fromer, 

Solange Karsenty, Yaniv Loewenstein 

X!Tandem Powered By Cell Be Processor Runs 10-Times Faster Than The Same 

On A Pc 

Yaroslav Lyurvinskiy (Institut for Analytical Instrumentation, RUSSIAN 

FEDERATION), Sergej Fironov, Nikolay Krasnov 

Conservation And Stoichiometry Of The Human Mitotic Spindle Phosphoproteome 

Rainer Malik (Max Planck Institute for Biochemistry, Department of Cell Biology, 

GERMANY), Erich A. Nigg, Roman Körner 

P-TUE-166 

P-TUE-167 

P-TUE-168 

P-TUE-169 

P-TUE-170 

P-TUE-171 

P-TUE-172 

P-TUE-173 

P-TUE-174 

Assessing Significance Of Protein-Protein Interactions Using Spectral Counts 

Hyungwon Choi, Ashton Breitkreutz, Brett G. Larsen, Zhaohui S. Qin, Anne-Claude 

Gingras, Mike Tyers, Alexey I. Nesvizhskii (University of Michigan, Department of 

Pathology, UNITED STATES) 

Software Tools For The Analysis Of Quantitative Proteomics Data 

Lars Nilse (Manchester University, UNITED KINGDOM) 

Comparative Proteomic Phenotyping To Assess Preservation Of Cell Functions 

Cuiping Pan (Max-Planck Institute for Biochemistry, GERMANY), Chanchal Kumar, 

Sebastian Bohl, Ursula Klingmueller, Matthias Mann 

Identification Of Low Quality Peptide Ms/Ms Spectra Using Dominant 

Fragmentation Patterns 

Hjalmar Permentier (University of Groningen, THE NETHERLANDS), Elena Wiederhold, 

Bert Poolman 

The Same Proteins Again? A Hit Parade Of Differentially Expressed Proteins 

Repeatedly Identified By 2-De 

Jiri Petrak (Institute of Hematology and Blood Transfusion / Department of 

Pathophysiology, First Faculty of Medicine, Charles University, CZECH REPUBLIC), 

Robert Ivanek, Ondrej Toman, Daniel Vyoral, Jan Zivny, Christopher Vulpe 

Intensity-Based Differential Analysis Of Complex Protein Mixtures Using Two- 

Dimensional (2dlc and Gelc) Datasets Coupled To Ms/Ms 

Thang Pham (Vu University Medical Center, THE NETHERLANDS), Sander Piersma, 

Connie Jimenez 

Automated Meta-Analysis Confirms The Hit-Parade Of Repeatedly Identified Proteins 

Elena Ponomarenko (Institute of Biomedical Chemistry Rams, RUSSIAN FEDERATION), 

A Lisitsa, J Petrak, S Moshkovskiy, A Archakov 

Evaluation Of Efficiency Of Cross-Species Comparisons 

Derek Potter (Proxeon A/S, DENMARK), Hans Jespersen, Alexandre Podtelejnikov, 

Morten Bern 

Analysis Workflows To Mine Mass Spectrometry Data 

Andreas Quandt (Swiss Institute of Bioinformatics, SWITZERLAND), Patricia 

Hernandez, Alexandre Masselot, Celine Hernandez, Sergio Maffioletti, Cesare 

Pautasso, Ron D. Appel, Frederique Lisacek 

110 111

P-TUE-175 Nist Reference Libraries Of Peptide Fragmentation Spectra: 2008 

Paul Rudnick (Nist, UNITED STATES), Niksa Blonder, Yuri Mirokhin, Lewis Geer, 

Dmitrii Tchekhovskoi, Lisa Kilpatrick, Jeri Roth, Qian Dong, Stephen Stein 

P-TUE-176 

P-TUE-177 

P-TUE-178 

P-TUE-179 

P-TUE-180 

P-TUE-181 

P-TUE-182 

P-TUE-183 

P-TUE-184 

P-TUE-185 

P-TUE-186 

P-TUE-187 

P-TUE-188 

Software Supported Process Optimization For Magnetic Beads Purification Of 

Glycoproteins 

Ulrike Schweiger-Hufnagel (Bruker Daltonik GmbH, GERMANY), Peter Hufnagel, 

Stefan Weise, Arnd Asperger, Katrin Sparbier, Irina Kessler, Markus Kostrzewa, 

Detlev Suckau 

WIelding The Double Edged Sword Of Multiple Ms/Ms Searching Engines 

Brian Searle (Proteome Software Inc., UNITED STATES), Mark Turner 

Protein Identification With Linear Programming 

Oliver Serang (University of Washington, UNITED STATES) 

Extensive Peptide Identification Via Sequence Temperature Values And Feature 

Probabilities 

Sean L. Seymour (Applied Biosystems|Mds Analytical Technologies, UNITED STATES), 

Ignat V. Shilov, Alpesh A. Patel, Wilfred H. Tang, Alex Loboda, Christie L. Hunter, 

Lydia M. Nuwaysir, Daniel A. Schaeffer 

Protein Methylation Site Prediction Using Profile-Based Bayesian Kernel Feature 

Extraction 

Jianlin Shao (Department of Biology, The Chinese University of Hong Kong, CHINA), 

Saiming Ngai 

Iprophet: Improved Validation Of Peptide Identification In Shotgun Proteomics. 

David Shteynberg (Institute for Systems Biology, UNITED STATES), Eric Deutsch, 

Henry Lam, Ruedi Aebersold, Alexey Nesvizhskii 

Rapid Proteome Profiling And Genome Annotation Using Positional Signature Peptides 

Jennifer Siepen (University of Manchester, UNITED KINGDOM), Lucy Mcdonald, 

James Wright, Robert Beynon, Simon Hubbard 

N-Dimensional Grouping As A Tool For Mining Proteomic Expression Profiling Data 

Stephen Tate (Mds Analytical Technologies, CANADA), Devando Pinto, Ron Bonner, 

Lyle Burton, Gordana Ivosev 

Proteomics Pipelining And Profiling Of Mass Spectrometry Data (P²M) 

Felix Tschoerner (Experimental Ophthalmology, Department of Ophthalmology, University 

of Mainz, GERMANY), Phllip Kroll, Marcel Blindert, Nils Boehm, Norbert Pfeiffer, Franz Grus 

Predicting Protein-Protein Interaction Motifs Based On Proteomic Interaction Data 

Aalt-Jan van Dijk (Plant Research International, Wageningen Ur, THE NETHERLANDS), 

Cajo ter Braak, Richard Immink, Gerco Angenent, Roeland van Ham 

Comparative Functional Analysis Of The Caenorhabditis Elegans And Drosophila 

Melanogaster Proteomes 

Manuel Weiss (University of Zurich, SWITZERLAND) 

Spectral Profile Libraries For Cross Species Proteomics 

James Wright (Veterinary Pre-Clinical Sciences, The University of Liverpool / Faculty 

of Life Sciences, The University of Manchester, UNITED KINGDOM), Simon Hubbard, 

Robert Beynon 

ProConf: A New Method To Estimate The False Positive Ratio Employing 

Hypergeometric Distribution Model 

Songfeng Wu (Beijing Proteome Research Center, CHINA), Ning Li, Jie Ma, Yunping 

Zhu, Fuchu He 

P-TUE-189 

P-TUE-190 




Connecting Nci Proteomics Repository To The Cancer Biomedical Informatics 

Grid (Cabig) 

Liming Yang (National Cancer Institute, UNITED STATES), Denny Chan, Carl Blake, 

Carl Schaefer 

High Confident Protein Id Of Etd And Ecd Spectra With A New Mass List 

Preprocessor 

Martin Zeller (Thermo Fisher Scientific, GERMANY), Bernard Delanghe, Torsten Ueckert 

An Innovative Algorithm For Sequence Motif Search 

Jianjun Zhang (Genentech Inc., UNITED STATES), Colin Watanabe 

Msaq: A New Software For Quantitative Proteomic Analysis With Stable 

Isotope-Coded Labeling 

Jiyang Zhang, Xin Liu, Hongwei Xie, Yunping Zhu (State Key Laboratory of 

Proteomics / Beijing Proteome Research Center / Beijing Institute of Radiation 

Medicine, CHINA), Xiaohong Qian, Fuchu He 

Prelocabc-- A Novel Predictor For Proteins’ Subcellular Localization By A 

Bayesian Classifier 

Yanqiong Zhang, Tao Li, Chunyuan Yang, Yunping Zhu (State Key Laboratory of 

Proteomics / Beijing Proteome Research Center / Beijing Institute of Radiation 

Medicine, CHINA), Fuchu He 








P-TUE-200 

P-TUE-201 

The Er N-Glycoproteome Research Of C57bl/6j Mouse 

Yun Cai (State Key Laboratory of Proteomics, Beijing Proteome Research Center. 

Beijing Institute of Radiation Medicine, CHINA) 

Proteomics Approach To Identify Serum Glycoproteins As Biomarkers Of Human 

Lung Adenocarcinoma 

Chu-Ling Wen (Graguate Institute of Biochemistry and Molecularbiology, Collage of 

Medicine, National Taiwan University, TAIWAN), Lu-Ping Chow 

Characterization Of Ptms And Their Effect On Enzyme Activity And Stability 

Maja Christiansen (Novozymes A/S University of Southern Denmark, DENMARK), 

Carsten Sönksen, Christian Jørgensen, Ole Jensen 

Glycation Plasma Proteome In Gestational Diabetes Predisposed To Preeclampsia 

Cc Wang (The Chinese University of Hong Kong, CHINA), Cy Chu, Tcw Poon, Wh Tam, 

Cy Li, Ms Rogers 

Glycoproteomics Of Paclitaxel Chemoresistance In Ovarian Cancer Cell Lines 

Michela di Michele (Catholic University, ITALY), Anna della Corte, Lucia Cicchillitti, 

Piero del Boccio, Andrea Urbani, Cristiano Ferlini 

Withdrawn 

Glycoproteomics: Analysis Of Carbohydrate Msms Fragment Ion Spectra By 

Database Searching 

Matthias Glueckmann, Donna Potts (Applied Biosystems, GERMANY), Christof Lenz, 

Lydia Nuwaysir, Ningombam Sanjib Meitei, Radha Nigam, Kamal Kishore 

Glycan Analysis By Capillary Electrophoresis Coupled To High Resolution Mass 

Spectrometry 

Carolin Huhn (Aalen University, GERMANY), L Renee Ruhaak, André M. Deelder, 

Manfred Wuhrer, Christian Neusüß 

112 113

P-TUE-202 

Glycomics Of Dmbt1sag: Potential Bacterial Binding Of Identified 

Polyfucosylated Lewis Type O-Linked Glycans 

Samah Issa (National University of Ireland Galway, IRELAND), Niclas Karlsson, 

Antoon Ligtenberg 

P-TUE-215 

A High Througput Sample Preparation Method For N-Glycan Profiling Of Plasma 

Glycoproteins 

L Renee Ruhaak (Leiden University Medical Center, THE NETHERLANDS), Manfred 

Wuhrer, Carolien A.M. Koeleman, Cornelis H. Hokke, Andre M. Deelder 

P-TUE-203 

De Novo Glycan Structure Search With Cid Ms/Ms Spectra Of Native 

N-Glycopeptides 

Hannu Peltoniemi (Medicel Ltd, FINLAND), Sakari Joenväärä, Risto Renkonen 

P-TUE-216 

Comparative Glycoproteomics Of Campylobacter Jejuni: An Insight Into Clinical 

Differences 

Nichollas Scott (University of Sydney, AUSTRALIA), Stuart Cordwell 

P-TUE-204 

P-TUE-205 

P-TUE-206 

P-TUE-207 

P-TUE-208 

P-TUE-209 

P-TUE-210 

N-Glycoproteomics - An Automated Workflow Approach 

Sakari Joenväärä (Medicel Ltd, FINLAND), Ilja Ritamo, Hannu Peltoniemi, Risto Renkonen 

Human Salivary Mucins: Mg2 (Muc7) Glycosylation Is Consistent, Whereas 

Mg1 (Muc5b) Glycosylation Varies Extensively Between Healthy Individuals 

Niclas Karlsson (Centre for Bioanalytical ScIences, Nui Galway, IRELAND), Kristina 

Thomsson, Nicolle Packer 

Glycoproteins Expressed Differentially In Mouse Exposed By Mercury Chloride 

Bong-Hwa Kim (Department of Molecular Medicine, KOREA), Hee-Young Son, Pyong- 

Gon Moon, Hong-Bae Jeon, Mi-Na Song, Sang-Hyun Kim, Moon-Chang Baek 

Improved Glycopeptide Profiling Of Pharmaceutical Compounds By Novel 

Enrichment Strategies 

Peter Leland (Emd Chemicals, Inc., UNITED STATES), Jessica Wohlgemuth, Thomas 

Eichhorn, Christian Hunzinger, Robertus Hendriks, Sven Andrecht 

Glycoblotting For Quantitative N- And O-Glycomics In Disease Diagnosis 

Yoshiaki Miura (Hokkaido University, JAPAN), Yasuro Shinohara, Jun-Ichi Furukawa, 

Shin-Ichiro Nishimura 

Mass Spectrometric Study Of Fgf-2 Glycation 

Helen Montgomery (Koichi Tanaka Mass Spec. Research Lab., Shimadzu, UNITED 

KINGDOM), Omar Belgacem, A Qadeer, Nessar Ahmed 

Boronic Acid Lectin Affinity Chromatography (Blac) In Glycoproteomics 

Alex Monzo (Horvath Laboratory of Bioseparation Sciences, AUSTRIA), Marcell 

Olajos, Lorenzo De Benedictis, Guenther Bonn, Andras Guttman 

P-TUE-217 

P-TUE-218 


P-TUE-220 

P-TUE-221 

P-TUE-222 

Disease Related Changes In The Glycosylation Pattern Of Serum Igg Analyzed By 

Maldi-Tof Ms 

Katrin Sparbier, Hassan Dihazi, Sabine Blaschke, Gerd-Anton Mueller, Thomas Flad, 

Markus Kostrzewa (Bruker Daltonik GmbH, GERMANY) 

Effect Of Glycosylation On The Extracellular Domain Of The Ag43 Bacterial 

Autotransporter 

Allan Stensballe (University of Aalborg, DENMARK), Daniel Otzen, Stine K. Knudsen 

Quantitative Proteomic Approach To Profile Phosphorylation And Glycosylation 

Changes In Mammalian Cells In Response To Hypoxia Treatment 

Safia Thaminy (Institute for Systems Biology, UNITED STATES), Yong Zhou, Mi-Youn 

Brusniak, Ning Zhang, Jingchun Chen, Simon Letarte, Carey Sheu, Julian Watts, 


High-Sensitivity Nano- And Capillary-Lc/Ms For Mucin O-Glycan Profiling 

Kristina Thomsson (Institute of Biomedicine, Göteborg University, SWEDEN), Malin 

Bäckström, Hasse Karlsson, Gunnar C. Hansson 

A Proteomic Approach To Detect Galectin-3 Ligands From Human Neutrophils 

Gisele Tomazella (Centro de Química de Proteínas - Unfesp, BRAZIL), Gustavo de 

Souza, Idalete da Silva, Harald Wiker, Roger Chammas, Lewis Greene 

Sweet Success: Characterizing O-Glcnac Sites With Electron Transfer 

Dissociation Ms 

Namrata Udeshi (Department of Chemistry, University of Virginia, UNITED STATES), 

Youn-Cheon Kim, Michael Housley, Gerald Hart, Neil Olszewski, Jeffrey Shabanowitz, 

Donald Hunt 

P-TUE-211 

P-TUE-212 

P-TUE-213 

Spot The Difference: What Is A Normal Glycomic Profile? 

Nicolle Packer (Macquarie University, AUSTRALIA), Pia Hønnerup-Jensen, Daniel 

Kolarich 

Mass Spectrometric Characterization Of Glycosylation In Antiophidic Proteins 

Dm43 and Dm64 

Ileana R. León, Jonas Perales (Oswaldo Cruz Foundation-Fiocruz / Rio De Janeiro 

Proteomic Network, BRAZIL), Ana G.C. Neves-Ferreira, Surza L.G. Rocha, Monique 

R.O. Trugilho, Daniela G. Beghini, Richard H. Valente 

Study Of Glycations Of Barley Lipid Transfer Proteins 

Inga Petry-Podgorska (Institute of Analytical Chemistry of The Ascr, CZECH 

REPUBLIC), Karel Mazanec, Janette Bobalova 

P-TUE-223 

P-TUE-224 

P-TUE-225 

N-Glycome Of Mesenchymal Stem Cells Can Be Used To Evaluate Cellular 

Differentiation 

Leena Valmu (Finnish Red Cross Blood Service, FINLAND), Suvi Natunen, Tero 

Satomaa, Annamari Heiskanen, Jari Natunen, Sari Tiitinen, Ulla Impola, Petri 

Lehenkari, Juhani Saarinen 

Withdrawn 

Automatic Interpretation Strategy For Ms-Based Analysis Of Standard 

Glycoproteins 

Yang Zhang (Institutes of Biomedical Sciences, Fudan University, CHINA) 

P-TUE-214 

Glycoproteomics: Applications For Stem Cell And Cancer Biomarkers 

Michael Pierce (Center for Biomedical Glycomics, Complex Carbohydrate Research 

Center, University of Georgia, UNITED STATES), Steven Dalton, Kelley Moremen, 

Michael Tiemeyer, Lance Wells, Ron Orlando, Karen Abbott, Gerardo Alvarez-Manilla, 

William York 

114 115

Mass Spectrometric Innovations 

P-TUE-226 

P-TUE-227 

P-TUE-228 

P-TUE-229 

P-TUE-230 

P-TUE-231 

Enhancing Linear Ion Trap Mass Spectrometry Etd Performance Using 

Supplemental Activation 

Zhiqi Hao, Jae Schwartz, John Syka, Andreas Huhmer (Thermo Fisher Scientific, 

UNITED STATES) 

Characterization Of Small Molecule-Protein Interaction Site By Combined 

Scanning Mode-Ion Filtering In A Hybrid Triple Quadrupole 

Enrique Calvo (Cnic, SPAIN), Emilio Camafeita, Juan Antonio Lopez 

N-Terminal Plasma Profiling In Biomarker Discovery 

Gemma Davidson (University of Liverpool, UNITED KINGDOM), Lucy Mcdonald, 

Duncan Robertson, Robert Beynon 

Metal-Imaging Mass Spectrometry (Mims): An Imaging Mass Spectrometry 

Technology To Determine The Distribution Of Metal Ions In Tissue Samples. 

Philip Doble (University of Technology Sydney, AUSTRALIA) 

Optimization Of Intact Pprotein Funnel-Skimmer Dissociation For Ftms 

Jennifer S. Cobb, Michael L. Easterling (Bruker Daltonics Inc., UNITED STATES), 

Jeffrey N. Agar 

Mass Spectrometric Analysis Of Plasma Proteins Using An Experimental Design: 

Challenges & Perspectives 

Srinubabu Gedela (Andhra University College of Engineering, India), Appa Rao Allam 

P-TUE-239 

P-TUE-240 

P-TUE-241 

P-TUE-242 

P-TUE-243 

P-TUE-244 

Full Automation Of Sample Preparation On Maldi Targets Using Stagetips 

Christopher Loessner (German Cancer Research Center, GERMANY), Heinrich 

Gausepohl, Martina Schnolzer 

A Simple And Efficient Concept For Etd and Ptr In A Spherical Ion Trap 

Ralf Hartmer, Markus Lubeck (Bruker Daltonik GmbH, GERMANY), Andreas 

Brekenfeld, Carsten Baessmann, Arnd Ingendoh 

Hplc–Ms Analysis Of Large Peptides And Intact Proteins Using Etd and Ptr 

Ion/Ion Reactions 

Andreas Leinenbach, Markus Lubeck, Ralf Hartmer, Carsten Baessmann, Christian 

Huber, Christian Albers (Bruker Daltonik, GERMANY) 

Combination Of Lc-Ms and Lc-Ms/Ms Datasets In Bottom-Up Proteomics 

Magnus Palmblad (Leiden University Medical Center, THE NETHERLANDS), Yuri van 

der Burgt, Hans Dalebout, André Deelder 

Lc/Ms Intact Mass Analysis Of Immunoglobulin Gamma Antibodies By Ltq- 

Orbitrap 

Pavel V. Bondarenko, Tonya Pekar Second (Thermo Fisher, UNITED KINGDOM), Vlad 

Zabrouskov, Alexander A. Makarov, Zhongqi Zhang 

An Ipg Mudpit Workflow For Ms Analysis Of Protein Complexes Purified By Blue 

Native Gels 

Mahbod Hajivandi (Invitrogen, UNITED STATES), Thomas Beardslee, Xiquan Liang, 

Paul Predki, R Marshall Pope 

P-TUE-232 

P-TUE-233 

P-TUE-234 

P-TUE-235 

P-TUE-236 

P-TUE-237 

Analyzing Plasma Proteome With Electron Transfer Dissociation And Proton 

Transfer Reaction 

Sarah Hart (University of Manchester, UNITED KINGDOM), Richard Blankley, 

Carsten Baessmann, Markus Lubeck, Laura Main, Simon Gaskell 

Evaluation Of Etd In A Hybrid Qh-Ftms Proteins 

Michael Easterling, Ralf Hartmer (Bruker Daltonik GmbH, GERMANY), Jiong Yang, 

Melvin A. Park 

Improved Coverage In Global Bottom Up Proteomics Survey Experiments By 

Decreasing Cycle Time On A Linear Ion Trap Mass Spectrometer 

Julian Phillips (Thermo Fisher Scientific, UNITED STATES), Julie Horner, Amy 

Zumwalt, Andreas Huhmer 

Optimization Of Parameters For Protein And Peptide Analysis Using High Field 

Asymmetric Waveform Ion Mobility Spectrometry (Faims) 

Julie Hornerr (Thermo Fisher Scientific, UNITED STATES), Sucharita Dutta, Julian 

Phillips, Mark Sanders 

Using Ims To Separate Precursors From Species Of Different Charges In Tandem 

Ms Analyses 

Chris Hughes (Waters Ms Technologies Centre, Manchester, UNITED KINGDOM), 

Therese Mckenna, Jim Langridge 

Specific Maldi Imaging Using Oligonucleotides, Antibodies And Lectins 

Amelie Laure Jacquet (Maldi Imaging Team Ustl, FRANCE), Mohamed El Ayed, 

Marchald Deschamp, I Rudolff, GG Proess, Maxence M. Wisztorski, Isabelle Fournier, 

Michel Salzet 

P-TUE-245 

P-TUE-246 

P-TUE-247 

P-TUE-248 

P-TUE-249 

P-TUE-250 

Imaldi+: A Targeted Proteomics Approach To Clinical Diagnostics 

Brinda Shah (Uvic Genome Bc Proteomics Centre / University of Victoria, CANADA), 

Jennifer Reid, Christoph Borchers 

Unprecedented Mass Accuracy Using Orbitrap Mass Spectrometry 

Richard Scheltema (University of Groningen, THE NETHERLANDS), David Wildridge, 

Michael Barrett, Ritsert Jansen, Rainer Breitling 

Continuously Monitoring The States Of Tryptic Digestion Processes Of Proteins 

By Ambient Liquid Mass Spectrometry (Alms) 

Jentaie Shiea, Cheng-Hui Yuan (Department of Chemistry, National Sun Yat-Sen 

University, TAIWAN), Jingyueh Jeng, Chih-Yuan Cheng, Li-Hua Lo 

Nano-Esi And Ion Trap-Etd/Ptr-Ms/Ms For The Analysis Of Post-Translational 

Modifications 

Frank Sobott (Oxford University, UNITED KINGDOM) 

Targeted Assignment Of Protein N- And C-Termini In Protein Samples By A 

Comprehensive Top-Down Lc-Maldi-Isd Sequencing Strategy 

Detlev Suckau (Bruker Daltonics, GERMANY), Anja Resemann 

Fast And Accurate Determination Of Monoisotopic Masses Of Polypeptides From 

Ftms 

Kunsoo Park, Joo Young Yoon, Sunho Lee, Eunok Paek (University of Seoul, KOREA), 

Heejin Park, Sang-Won Lee 

P-TUE-238 

A New Peptide Profiling Technology For Early Diagnosis And Personalized Medicine 

Lyang-Ja Lee (Protosera Inc., JAPAN), Kenji Tanaka, Nobuya Sanuki, Ushio Takeda, 

Kazuhiro Ishida, Teruto Hashiguchi, Ikurou Maruyama 

116 117


P-TUE-251 

P-TUE-252 

P-TUE-253 

Evaluation Of Chemical Beta-Elimination For Analysis Of Phosphorylated Peptides 

Nicolai Bache (University of Southern Denmark, DENMARK), Martin Røssel Larsen 

Cerebrospinal Fluid Phosphoproteome Investigated Using Tio2 Chromatography 

And Mass Spectrometry 

Justyna Bahl (Statens Serum Institut, Dpt. of Autoimmunology, DENMARK), Søren 

Jensen, Martin Larsen, Niels Heegaard 

A Comprehensive Phosphoproteome Workflow 

Roger G. Biringer (Thermo Fisher Scientific, UNITED STATES), Zhiqi Hao, Michael G. 

Harrington, Andreas F.R. Hühmer 

P-TUE-263 

P-TUE-264 

P-TUE-265 

Serine 395, Controls Transcriptional Activity In The Aryl Hydrocarbon Receptor 

Alan Friedman (University of Rochester, UNITED STATES), Brent Kobielush, Gary 

Minsavage, Daria Vorojeikina, Mike Easterling, Thomas Gasiewicz 

Phosphoproteome Profiling Of Human Lung Cancer 

Angelo Gámez-Pozo (Hospital Universitario La Paz, SPAIN), Iker Sánchez-Navarro, 

Enrique Calvo, Manuel Nistal, JavIer de Castro, Enrique Espinosa, Juan Antonio 

López, Manuel González-Barán, Juan Ángel Fresno Vara, E Camafeita 

Protein Phosphorylation Characterization By Maldi-Tof Mass Spectrometry 

With The Improved Matrix Layer Sample Preparation 

Ignazio Garaguso (Fraunhofer Institute of Toxicology and Experimental Medicine, 

GERMANY), Juergen Borlak 

P-TUE-254 

P-TUE-255 

P-TUE-256 

P-TUE-257 

P-TUE-258 

P-TUE-259 

Automated Serum Phosphopeptide Profiling Of Glaucoma Patients 

Nils Boehm (Experimental Ophthalmology, Department of Ophthalmology, University 

of Mainz, GERMANY), Joachim Richter, Susanne Rosfa, Stephanie Joachim, Norbert 

Pfeiffer, Franz Grus 

Phosphorylation-Specific Interaction And Regulation Of Vasp In Platelets 

Julia Burkhart (Protein Mass Spectrometry and Functional Proteomics Group 

Rudolf-Virchow-Center, GERMANY), Thomas Premsler, Peter Benz, Michaela Kuhn, 

Thomas Renné, Albert Sickmann 

First Round And Second Round Search Engines For Analyzing Post-Translational 

Modifications Such As Phosphorylation 

M Blueggel, LM Freimark, RJ Shaw, DC Chamrad, C Huels (Protagen Ag, GERMANY), 

JM Asara 

Phosphoproteomic Analysis Of Oxidative Stress In Epithelial Cells: Major Role Of 

Src Kinase-Dependent Phosphorylation In Regulating Adhesion 

Hong-Lin Chan, Hsiu-Chuan Chou, Jana Gruenewald, Michael Waterfield, Anne Ridley, 

John Timms (Ega Institute for Women’s Health, University College London, UNITED 

KINGDOM) 

Quantitative Phosphoproteome Analysis Applied To The Human Neural Stem Cell 

Kun Cho (Mass Spectrometry Research Team, Korea Basic Science Institute, 

KOREA), Eunmin Kim, Gun Wook Park, Jeong Hwa Lee, Yeong Hee Ahn, Kyung-Hoon 

Kwon, Jin Young Kim, Kyung Hee Byun, Bong Hee Lee, Jong Shin Yoo 

Anchoring Phosphorylation To Surfaces For Localisation And Enrichment Studies 

Garry Corthals (Turku Centre for Biotechnology / University of Turku/ Åbo Akademi 

University, FINLAND), Petri Kouvonen, Susumu Imanishi, John Eriksson, Eeva Rainio, 

Päivi Koskinen, Anne Rokka, Mika Linden, Jan-Henrik Smått 

P-TUE-266 

P-TUE-267 

P-TUE-268 

P-TUE-269 

P-TUE-270 

P-TUE-271 

P-TUE-272 

Strategies For Finding The Most Important Phosphorylation Sites In A Protein 

Mark Graham (Children’s Medical Research Institute, AUSTRALIA), Ling Chan, Phillip 

Robinson 

Quantification Of Tyrosine Phosphorylation By Affinity Enrichment And Isotopic Labelling 

Peter Hoffmann (University of Adelaide, AUSTRALIA), Mark R. Condina, Shaun R. Mccoll 

Cid And Etd Analysis Of Kinase Sites Of Phosporylation With High Mass 

Accuracy Measurement 

Martin Hornshaw (Thermo Fisher Scientific, UNITED KINGDOM), Kai Scheffler, 

Martin Zeller, Nick Morrice 

Phosphoproteomic Signature In Lung Cancer Metastasis Revealed By A Label- 

Free Strategy 

Chuan-Chih Hsu (Department of Chemistry, National TAIWAN University / Institute of 

Chemistry, Academia Sinica, TAIWAN), Yi-Ting Wang, Chia-Feng Tsai, Pei-Yi Lin, Tzu- 

Chan Hong, Chih-Chiang Tsou, Wen-Lian Hsu, Ting-Yi Sung, Tze-Min Hong, Yu-Ju Chen 

Phosphoproteome Analysis Of Estrogen-Induced Breast Cancer Cell Signaling 

Koshi Imami (Institute for Advanced Biosciences, Keio University, JAPAN), Naoyuki 

Sugiyama, Yutaka Kyono, Masaru Tomita, Yasushi Ishihama 

Comparative Cid and Etd Of Enriched Hydrophobic Peptides Of H. Salinarum 

Membrane Proteins 

Arnd Ingendoh (Bruker Daltonik GmbH, GERMANY), Christian Klein, Frank Siedler, 

Dieter Oesterhelt, Beatrix Scheffer, Friedhelm Peiffer 

Acidic Amino Acid Modifications In Proteins/Peptides From Frog Skin Secretion 

Lene A. Jakobsen (University of Southern Denmark, DENMARK), Tianbao Chen, Chris 

Shaw, Martin R. Larsen 

P-TUE-260 

Proteomics Screen To Identify 14-3-3 Binding Partners Regulated By Insulin 

Fanny Dubois (Mrc Protein Phosphorylation Unit, UNITED KINGDOM), Franck 

Vandermoere, Rachel Toth, Nicholas Morrice, Carol Mackintosh 

P-TUE-273 

A New Sample Prep Tool For Enrichment Of Phospho-Peptides Using Phos Spintrap Fe 

Lena Jonsson (Ge Healthcare, SWEDEN), Johan Öhman, Ann-Marie Nissfolk, Marika 

Sjödahl, Inger Salomonsson, Ulf Hellberg, Helena Hedlund 

P-TUE-261 

P-TUE-262 

Comparative Analysis Of The Human Kinome Phosphorylation At Distinct Mitotic 

Stages 

Kalyan Dulla (Dept of Cell Biology, Max Planck Institute of Biochemie, GERMANY), 

Henrik Daub, Renate Hornberger, Albert Ries, Erich A. Nigg, Roman Körner 

Comprehensive Strategy For Characterization Of Phosphorylation Events In The 

Il-1β Pathway 

Kasper Engholm-Keller (University of Southern Denmark, DENMARK), Søren Skov 

Jensen, Flemming Pociot, Martin Røssel Larsen 

P-TUE-274 

P-TUE-275 

Array Based Protein Expression Analysis Cell Signalling In Murine Hepatocellular 

Carcinomas 

Thomas Knorpp (Nmi - Natural and Medical Sciences Institute at The University of 

Tübingen, GERMANY), Berthold Gierke, Philip Marx-Stölting, Michael Pawlak, Michael 

Schwarz, Markus F. Templin 

Performing Phosphopetide Analysis On A Titanium Dioxide Based Enrichment And 

Separation Chip 

Karsten Kraiczek (Utrecht University Biomolecular Ms and Proteomics Group, GERMANY), 

Shabaz Mohammed, Martijn Pinkse, Reinout Raijmakers, Tom van de Goor, Albert 

Heck, Simone Lemeer 

118 119

P-TUE-276 

Dissection Of The Insulin And Igf-1 Signaling Pathways By Quantitative Proteomics 

Irina Kratchmarova (Dep. of Biochemistry and Molecular Biology, University of 

Southern Denmark, DENMARK) 

P-TUE-288 

Enrichment And Separation Of Phosphopeptides Using Free Flow Electrophoresis 

Mikkel Nissum, Sabine Kronbauer, Robert Wildgruber (Bd Diagnostics, GERMANY), 

Craig Gelfand, Christoph Eckerskorn, David Craft 

P-TUE-277 

Arthritis-Inducible Protein, Annexin Vii: High Phosphorylation In Rheumatoid Arthritis 

Manae Kurokawa (Clinical Proteomics & Molecular Medicine, St. Marianna University 

School of Medi, JAPAN), Kosuke Matsuo, Hiroshi Nakamura, Kayo Masuko, Kazuki 

Okamoto, Tomohiro Kato 

P-TUE-289 

Global Phosphopeptide Profiling In Lncap-Cells 

Heike Piechura (Medizinisches Proteom-Center, Ruhr-Universitaet Bochum, 

GERMANY), Sebastian WIese, Christian Bunse, Eva M. Neuhaus, Hanns H. Hatt, 

Helmut E. Meyer, Bettina Warscheid 

P-TUE-278 

P-TUE-279 

P-TUE-280 

P-TUE-281 

P-TUE-282 

P-TUE-283 

P-TUE-284 

Quantitative Phosphoproteomics Of Depolarized Nerve Terminals. 

Martin R. Larsen (University of Southern Denmark, DENMARK), Mark E. Graham, 

Phillip J. Robinson 

Discovery Of Phosphoprotein Hepatocellular Carcinoma Biomarkers Using A Fully 

Automated Tio2-Based 3dlc (Scx/Tio2/C18)-Ms/Ms Method 

Hyoung-Joo Lee (Yonsei Proteome Research Center, Biomedical Proteome Research 

Center, Department of Biochemistry, KOREA), Keun Na, Min-Seok Kwon, Min-Jeong 

Kang, Hoguen Kim, Young-Ki Paik 

Novel Tyrosine Kinase Substrates In Oncogenic Egf Signaling And Breast Cancer 

Development 

Yoon Pin Lim (National University of Singapore, Singapore), Yunhao Chen, Lee Yee 

Choong, Qingsong Lin, Robin Philp 

Targeted Srm Assays Of Cell Lysate Phosphopeptides Enriched By Automated, 

Magnetic Bead-Based System 

Mary F. Lopez, Bryan Krastins (Thermofisher Scientific, UNITED STATES), David 

Sarracino, John Rogers, Paul Haney, Michael Athanas, Amol Prakash 

Insulin Dosages Mediate Irs-1 Phosphorylation Patterns That Are Associated 

With Positive And Negative Signaling Effects 

Xiao-Ming Lu (Massachusetts General Hospital, Harvard Medical School / The 

Shriners Hospital for Children, UNITED STATES), Amy Lu, Edward Carter, Joseph 

Avruch, Ronald Tompkins, Alan Fischman 

Enhanced Phosphopeptide Detection And Sequencing Using Uplc With A Tandem 

Quadrupole 

Therese Mckenna, Daniel J. Kenny, James I. Langridge (Waters Corporation, UNITED 

KINGDOM) 

Characterization Of Foxm1 Phosphorylation Sites Using Online Tio2 

Phosphopeptide Enrichment 

Jamila Laoukili, Monica Alvarez, Lars Meijer (Department of Physiological Chemistry and 

Centre for Biomedical Genetics, University Medical Center Utrecht, THE NETHERLANDS), 

Marie Stahl, Shabaz Mohammed, Livio Kleij, Albert Heck, René Medema 

P-TUE-290 

P-TUE-291 

P-TUE-292 

P-TUE-293 

P-TUE-294 

P-TUE-295 

P-TUE-296 

Characterization Of Imac And Tio2 In The Study Of Dynamic Regulation Of 

Phosphorylation 

Xiquan Liang (Invitrogen, UNITED STATES), Gier Fonnum, Mahbod Hajivandi, Torkel 

Stene, Nini H. Kjus, Erlend Ragnhildstveit, Joseph W. Amshey, Paul Predki, R 

Marshall Pope 

Phosphorylation-Specific Interaction And Regulation Of Vasodilator-Stimulated 

Phosphoprotein 

Thomas Premsler (Rudolf-Virchow-Center for Experimental Biomedicine, Protein 

Mass Spectrometry, University of Wuerzburg, GERMANY), Julia Maria Burkhart, 

Albert Sickmann, Peter Benz, Thomas Renné, Michaela Kuhn 

Analysis Of Stoichiometry Of Protein Phosphorylation In Adipocyte Lipid 

Droplets By Isotopic Tagging 

Alexey Pshezhetsky (Deps of Pediatrics And Biochemistry, University of Montreal 

/ Department of Medical Genetics, Sainte-Justine Hospital, CANADA), Eugenii 

Kanshin, Shu Pei Wang, Mila Ashmarina, Grant Mitchell, Ilya Nifant’ev 

Imatinib Resistance In Cml Is Caused By Bcr-Abl-Independent Activation Of 

Raf 

Julia Rosenhahn (Institute of Human Genetics and Anthopologie, Friedrich Schiller 

University Jena, GERMANY), Ignacio Rubio, Christina Hipler, Ivan F. Loncarevic, 

Ferdinand von Eggeling 

Multiple Protease Digestion Using Immobilized Enzymes: An Effective Sample 

Preparation Method For The Protein Structural Analysis By Mass Spectrometry. 

Yukie Sasakura (Hitachi High-Technologies, JAPAN), Ayumi Suzuki, Katsuhiro Kanda, 

Izumi Waki 

Plant Phosphoproteome By Hydroxy Acid-Modified Metal Oxide Chromatography 

(Hammoc) 

Naoyuki Sugiyama (Institute for Advanced Biosciences, Keio University / Human 

Metabolome Technologies, Inc., JAPAN), Hirofumi Nakagami, Sumiko Ohnuma, Keiichi 

Mochida, Arsalan Daudi, Masaru Tomita, Ken Shirasu, Yasushi Ishihama 

Withdrawn 

P-TUE-285 

Online Automated Phosphoproteomics Using Tio2 

Martijn Pinkse, Shabaz Mohammed, Martina O’Flaherty (Biomolecular Mass 

Spectrometry and Proteomics Group, Utrecht University, THE NETHERLANDS), 

Simone Lemeer, Albert Heck 

P-TUE-297 

Targeting Biologically Important But Poorly Ionized Phosphopeptides Using Lc/ 

Mrm/Ms/Ms 

Lorne Taylor (Samuel Lunenfeld Research Institute, Mt. Sinai Hospital, CANADA), 

Andreas Traweger, Brett Larsen, David Cox, Stephen Tate, Tony Pawson 

P-TUE-286 

P-TUE-287 

Phosphoproteomic Analysis Of 3 Distinct Tumor Cell Lines Arrested At M-Phase 

Kohji Nagano (Chugai Pharmaceutical Co., Ltd., JAPAN), Takashi Shinkawa, Osamu 

Kondoh, Sayuri Morimoto, Noriyuki Inomata, Nobuya Ishii, Yuko Aoki, Masayuki 

Haramura 

Protein Phosphorylation Analysis And Quantification Of Mice Kidney Proteins By 

2d-DpAge And Icp-Ms 

Boris Neumann (Proteome Factory Ag, GERMANY), Karola Lehmann, Jens Altvater, 

Robert Ahrends, Franz Theuring, Christian Scheler 

P-TUE-298 

P-TUE-299 

Titanium Dioxide Coated MAldi Plate For On Target Analysis Of Phosphopeptides 

Federico Torta (San Raffaele Scientific Institute, ITALY), Angela Bachi, Matteo Fusi, 

Carlo S. Casari, Carlo E. Bottani 

Serine 395, Imporant For Transcriptional Activity In Mouse-Ahr, Is 

Phosphorylated By Pka 

Alan Friedman, Michael Easterling, Patrick van Houts (Bruker Daltonics Inc., UNITED 

STATES), Brent R. Kobielush, Daria Vorojeikina, Thomas A. Gasiewicz 

120 121

P-TUE-300 

P-TUE-301 

Evaluation Of The Low-Specificity Protease Elastase For Phosphoproteome 

Analysis 

Bin Wang (Max Planck Institute for Biochemistry, GERMANY), Rainer Malik, Albert 

Ries, Erich A. Nigg, Roman Körner 

Analysis Of Phosphopeptides By Alkaline Phosphatase Reactor And Micro-Hplc- 

Esi-Ms/Ms 

Hui Wang (Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 

CHINA), Jicheng Duan, Zhen Liang, Lihua Zhang, Yukui Zhang 

P-TUE-313 

P-TUE-314 

Rainer Breitling, Maarteen Koornneef, Ritsert Jansen 

Peptid Markers To Identify Wheat Allergens 

Tamas Janaky (Department of Medical Chemistry, University of Szeged, Hungary), 

Eva Gelencser, Attila Csorba, Krisztina Takacs, Jeno Szamos 

The Effects Of Peripheral And Central Administration Of Hypericum Perforatum 

L. On Chronic And Acute Pain 

Farzaneh Biranvand (Medical Sciences, Iran), Mojtaba Khaksarian 

P-TUE-302 

P-TUE-303 

Specific And Efficient Enrichment Of Phosphopeptides For Phospho-Proteome 

Analysis By Mass Spectrometry 

Paige Weis (Emd Chemicals, UNITED STATES) 

Optimization Of Immobilized Metal Ion Affinity Chromatography For Phosphopeptide 

Enrichment Prior To Mass Spectrometry 

Juanying Ye (Protein Research Group, Department of Biochemistry and Molecular 

Biology, University of Southern Denmark, DENMARK), Xumin Zhang, Peter Roepstorff, 

Ole Nørregaard Jensen 

P-TUE-315 

P-TUE-316 

Studty Of Photochemical And Antinociceptive Properties Of Medicinal Plant 

Allium Jesdianum And Probable Role Of The Opioidergic System 

Mojtaba Khaksarian (University of Medical Science, Iran), Bahram Delfan, Behroz 

Ahmadi 

Compared Proteomic Of The Flag Leaves Senescence Between Rice 93-11 And 

Nipponbare 

Qingtao Lu (Institute of Botany, CHINA / Institute of Plant Science, SWITZERLAND), 

Wei Li, Congming Lu 

P-TUE-304 

P-TUE-305 

P-TUE-306 

Withdrawn 

Tyrosine-Phosphorylated Proteins Are Predominantly Localized In The Glomerulus 

Of Normal Rat Kidney 

Ying Zhang (Department of Structural Pathology, Institute of Neprhology, Niigata 

Graduate School of Medical and Dental Sciences, JAPAN), Yutaka Yoshida, Bo Xu, 

Masaaki Nameta, Eishin Yaoita, Hidehiko Fujinaka, Tadashi Yamamoto 

Comparative Analysis Of Phosphoproteome Between Human Cerebellum And 

Prefrontal Cortex 

Ning Fu (Shanghai Institutes for Biological Sciences, CHINA), Jie Dai, Yi-Xue Li, Jia- 

Rui Wu, Philipp Khaitovich, Rong Zeng 

Plant Proteomics 

P-TUE-307 

P-TUE-308 

P-TUE-309 

P-TUE-310 

P-TUE-311 

Lead Induced Changes On Proteome Of Catharanthus Roseus (L.) G.Don 

Palanisamy Arun Mozhi Varman (Bharathidasan University, India) 

Fungal Proteomics 

Vijai Bhadauria (State Key Laboratory for Agrobiotechnology, China Agricultural 

University, CHINA), You-Liang Peng 

Rapid Bioinformatic Comparative Analysis Of Cold Shock TreaTed Rice Proteome 

John Chakel (Proxeon A/S, DENMARK), Alexandre Podtelejnikov, K Neilson, J Chick, 

Paul Haynes 

Dehydration Stress Responsive Comparative Proteome Of Lathyrus Sativus, A 

Hardy Legume 

Arnab Chattopadhyay, Aarti Pandey, Deepti Bhushan, Lalit Agrawal, Asis Datta, 

Subhra Chakraborty, Niranjan Chakraborty (National Institute for Plant Genome 

Research, India) 

Mass Spectrometry Studies Of S-Nitrosylated Peptides In Plant Proteomics 

Lisa Elviri (University of Parma, ITALY), Francesca Speroni, Emanuela Vurro, Maria 

Careri, Alessandro Mangia, Roberto de Michele, Michela Zottini, Fiorella lo Schiavo 

P-TUE-317 

P-TUE-318 


P-TUE-320 

P-TUE-321 

P-TUE-322 

The Changes In The Phospholipid Composition Of Nuclear Subfractions In Treated 

By Non-Thermal Electromagnetic Radiation Wheat Seedlings 

Liya Alexandrovna Minasbekyan (Yerevan State University, Armenia) 

2de and 2d-Lc Analysis Of Wheat Line Taichung29*6/Yr5 Inoculated With 

Stripe Rust Race Cy32 

Yinghong Pan (Institute of Crop Science, Chinese Academy of Agricultural Sciences 

/ Nfcri, CHINA), Shichang Xiu, Cheng Ma, Jing Liu, Zhaohui Zhang, Ji Luo 

The Proteome Of Arabidopsis Thaliana Analyzed By Electron Transfer 

Dissociation Utilizing High Mass Accuracy Measurements 

Kai Scheffler (Thermo Fisher Scientific, Dreieich, GERMANY), Martin Hornshaw, 

Martin Zeller, Bernd Mueller 

Ion Mobility Coupled To NanOspray Lc Adds Another Dimension Of Separation 

For Complex Proteomics Samples 

Michaela Scigelova (Thermo Fisher Scientific, Dreieich, GERMANY), Gary Woffendin, 

Martin Hornshaw, Kai Scheffler, Bernd Mueller 

Digging Into The Plant Proteome 

Sergey Sikora (Genway Biotech, Inc., UNITED STATES), Xiangming Fang, Li Deng, 

Wei-Wei Zhang 

Profiling The Proteome Of Chlamydomonas Reinhardtii (Green Algae) Exposed To 

Multiple Stressors 

Marc Suter (Eawag, SWITZERLAND), Holger Nestler, René Schönenberger, Victor 

Nesatyy 

P-TUE-312 

Genetic Basis Of Proteome Variation In Arabidopsis 

Jingyuan Fu (Groningen Bioinformatics Centre, Groningen Biomolecular Sciences 

and Biotechnology Institute, University of Groningen, THE NETHERLANDS), Joost 

Keurentjes, Twan America, Richard Scheltema, Martijn Dijkstra, Dick Vreugdenhil, 

122 123

Proteomics Of Macromolecular Complexes 

P-TUE-323 

P-TUE-324 

P-TUE-325 

Analysis Of Nuclear Pore Complex Phosphorylation Sites Using A Maldi-Ltq 

Orbitrap Mass Spectrometer 

Justin Blethrow (Thermo Fisher Scientific, UNITED STATES), Rosa Viner, Vlad 

Zabrouskov, Joseph Glavy 

Analyses Of Proteasome Complexes And Proteome Variations In Acute Myeloid 

Leukemia Cells 

Mariette Matondo, Marie-Pierre Bousquet-Dubouch, Sandrine Uttenweiler-Joseph, 

Bernard Payrastre, Stéphane Manenti, Bernard Monsarrat, Odile Burlet-Schiltz 

(Institut de Pharmacologie et De Biologie Structurale, Cnrs, FRANCE) 

Mapping Human Protein Interaction Networks: The Human Proteotheque 

Initiative (Hupi) 

Benoit Coulombe (Institut de Recherches Cliniques de Montréal, CANADA), Philippe 

Cloutier, Annie Bouchard, Célia Jeronimo, Andrée-Anne Lacombe, Racha Al-Khoury, 

Mathieu Lavallée-Adam, Jack Greenblatt, Mathieu Blanchette, Diane Forget 

P-TUE-334 

P-TUE-335 

P-TUE-336 

P-TUE-337 

Quantitative Analysis Of C/Ebp{Alpha} Transcription Complexes In Leukemia 

Rositsa Koleva (Dana-Farber Cancer Institute, UNITED STATES), Scott Ficarro, 

Manor Askenazi, Jarrod Marto 

Shot-Gun Membrane Proteomics By Acid Hydrolysis Combined With Trypsin And 

Chymotrypsin 

Joseph Kwon (Proteome Research Team, Korea Basic Science Institute, KOREA), 

Jeehyun Oh, Sunghoon Lee, Seung Il Kim, Jong-Soon Choi 

Proteomics Study On Human Ccr4-Not: A Multi-Functional Complex Involved In 

Mrna Metabolism 

Nga-Chi Lau (Umc-Utrecht, THE NETHERLANDS), Annemieke Kolkman, Pim Pijnappel, 

Albert Heck, Marc Timmers 

Identification Of Protein Phosphorylation Sites Associated With Protein Complex 

Assembly Using An Imac-Based Proteomics Procedure 

Chang-Hung Lee (Institute of Biochemistry and Molecular Biology, National Yang- 

Ming University, TAIWAN) 

P-TUE-326 

Characterization Of A Novel Subunit Of The Drosophila Melanogaster Chromatin 

Remodeling Complex Pbap 

Jeroen Demmers (Erasmus Mc, THE NETHERLANDS), Gillian Chalkley, Yuri Moshkin, 

Karin Langenberg, Karel Bezstarosti, Andras Blastyak, Henrik Gyurkovics, Peter Verrijzer 

P-TUE-338 

Molecular Recognition In Oligomeric Enzymes: Integration Of Bioinformatic And 

Biosensoric Approaches 

Andrey Lisitsa (Institute of Biomedical Chemistry Rams, RUSSIAN FEDERATION), YU 

Mezentsev, P Ershov, A Molnar, A Ivanov, A Archakov 

P-TUE-327 

P-TUE-328 

P-TUE-329 

Differential Biotinylation To Study Influenza A Polymerase Subunit Pb1 

Heterodimerisation 

Mathias Dreger (Department of Physiology, Anatomy and Genetics, University of 

Oxford, UNITED KINGDOM), Tao Deng, George G. Brownlee 

Proteomics Of Protein Complexes: An Approach To Analyze Native Proteomes 

Oliver Drews (Department of Physiology, University of California Los Angeles, 

UNITED STATES), Yueju Wang, Emily Chen, Jun Zhang, John Yates 3rd, Peipei Ping 

Topology And Dynamics Of Protein Interaction Networks That Control Cell Growth 

Matthias Gstaiger (Institute of Molecular Systems Biology / Competence Center for 

Systems Physiology and Metabolic Diseases, SWITZERLAND), Oliver Rinner, Timo Glatter, 

Alexander Wepf, Irena Jevtov, Katja Köhler, Hugo Stocker, Ernst Hafen, Ruedi Aebersold 

P-TUE-339 

P-tue-340 

P-TUE-341 

Capture Of The Activated Fc Receptor Complex From The Surface Of Live Cells 

By Affinity Receptor Chromatography 

John Marshall (Ryerson University, CANADA), Peihong Zhu, Andy Jankowski 

Post-Translational Modifications Of The Endogenously Expressed Transcription 

Factors Tfiid and Saga 

N Mischerikow (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht 

University, THE NETHERLANDS), AFM Altelaar, HTM Timmers, WWM Pijnappel, AJR 

Heck 

Spatiotemporal Changes Of Pka-Akap Complexes In Response To Prostaglandin E2 

Nikolaus Oberprieler (Biotechnology Centre of Oslo, University of Oslo, NORWAY), 

Thin Thin Aye, Knut Martin Torgersen, Albert Heck, Kjetil Tasken 

P-TUE-330 

P-TUE-331 

Pull-Downs Of Endogenously Expressed, Tagged Proteins For Interactions And 

Modifications 

Nina Hubner (Max-Planck Institute for Biochemistry, Dep. Proteomic and Signal 

Transduction, GERMANY), Johannes Graumann, Michiel Vermeulen, Alexander Bird, 

Ina Poser, Matthias Mann 

“Tagless” Strategy Of Protein Complex Identification: Towards High Throughput 

Jian Jin (Lawrence Berkeley National Laboratory, UNITED STATES), Lee Yang, 

Haichuan Liu, Ming Dong, Simon Allan, Steven Hall, Susan Fisher, John-Marc 

Chandonia, Mark Biggin, Ewa Witkowska, Peter Walian, Bing Jap, Terry C. Hazen 

P-TUE-342 

P-TUE-343 

Looking For E2f2 Transcription Factor Interacting Proteins 

Nerea Osinalde (Department of Biochemistry and Molecular Biology, University of 

The Basque Country, SPAIN), Kerman Aloria, Ana Zubiaga, Asier Fullaondo, Jesus M. 

Arizmendi 

Quantitative Phospho-Proteomics Elucidates Phosphorylation-Dependent 

Transcriptional Regulation Of The Yeast Mediator Complex 

Gideon Oudgenoeg (Biomolecular Mass Spectrometry and Proteomics Group, 

Utrecht University, THE NETHERLANDS), Manuel Tzouros, Joris Benschop, Tony 

Miles, Frank Holstege, JeroeN Krijgsveld 

P-TUE-332 

P-TUE-333 

Characterization Of Protein-Complexes Complementing Functional-Genomic 

Screens In Human Cell-Lines 

Magno Junqueira (Max Planck Institute of Molecular Cell Biology and Genetics - 

Dresden, GERMANY), Yusuke Toyoda, Mikolaj Slabicki, Zoltan Maliga, Mirko Theis, 

Dragomir Krastev, Frank Buchholz, Antony Hyman, Andrej Shevchenko 

Chromatin Proteome Demonstrates System-Wide Response To Replication 

Inhibition 

Guennadi A. Khoudoli (University of Dundee, UNITED KINGDOM), Peter J. Gillespie, 

Graeme X. Stewart, Jens S. Andersen, Jason R. Swedlow, J Julian Blow 

P-TUE-344 

P-TUE-345 

P-TUE-346 

Targeting Dynamic Changes Of The Cftr Interactome In Cystic Fibrosis 

Sandra Pankow (The Scripps Research Institute, UNITED STATES), Casimir 

Bamberger, William Balch, John R. Yates 

Cell Cycle Regulation Of Tbp Complexes In Human Cells 

Pim Pijnappel (Umc-Utrecht, THE NETHERLANDS), Annemieke Kolkman, Marijke 

Baltissen, Albert Heck, Marc Timmers 

Examination Of The Protein Complexes Bound On Gal Operon Promoter Of 

Thermoanaerobacter Tengcongensis 

Zhong Qian (Beijing Genomics Institute, Cas, CHINA), Fan Wei, Li Guo, Siqi Liu 

124 125

P-TUE-347 

Background Proteins In Immunoprecipitations: What Are They And How To 

Reduce Them 

Manfredo Quadroni (University of Lausanne, SWITZERLAND), Waridel Patrice, 

Bastienne Jaccard, Alexandra Potts 

P-TUE-361 

Identification Of Putative Complex I Assembly Factors By Blue Native Liquid 

Chromatography Ms/Ms 

JCT Wessels (Radboud University Nijmegen Medical Center, THE NETHERLANDS), 

RO Vogel, LP van den Heuvel, RJ Rodenburg, LG Nijtmans, JAM Smeitink, MH Farhoud 

P-TUE-348 

P-TUE-349 

P-TUE-350 

P-TUE-351 

P-TUE-352 

P-TUE-353 

P-TUE-354 

P-TUE-355 

P-TUE-356 

P-TUE-357 

P-TUE-358 

P-TUE-359 

P-TUE-360 

Optimized Immunoprecipitation And Co-Immunoprecipitation Using Dynabeads 

Elisabeth Breivold, David Gillooly, Paal Songe, Erlend Ragnhildstveit (Invitrogen Dynal 

As, NORWAY) 

Proteasome Diversity Analysed By Isotope Labelling And Protein Quantitation 

Reinout Raijmakers (Biomolecular Mass Spectrometry and Proteomics Group, 

Utrecht University, THE NETHERLANDS), Celia Berkers, Annemieke de Jong, Huib 

Ovaa, Shabaz Mohammed, Albert Heck 

Withdrawn 

Withdrawn 

Lc-Ms AnalysIs To Identify Ryanodine Receptor 1 (Ryr1) Protein-Protein Interactions 

Timothy Ryan (University of Toronto, CANADA) 

Quantitative 20s Proteasome Analysis From 5fu-Induced Apoptotic Jurkat T 

Cells By Silac, Sds-Page, And 2de Based Analysis 

Frank Schmidt (Helmholtz Centre, Leipzig, GERMANY), Alexander Kloos, Martin von 

Bergen, Burkhardt Dahlmann, Peter Jungblut, Bernd Thiede 

Proteomic Analysis Of Membrane Protein Complexes: Lessons From Affinity- 

Purified Ion Channels And Receptors 

Uwe Schulte (Logopharm GmbH, GERMANY), Catrin Müller, Wolfgang Bildl, Bernd Fakler 

Analysis Of Subunit Composition Of The 20s Proteasome Of Plasmodium Falciparum 

Nicole Sessler (Proteome Center Tübingen, University of Tübingen, GERMANY), 

Wolfgang Schütz, Rolf Fendel, Benjamin Mordmüller, Peter G. Kremsner, Tobias 

Lamkemeyer, Alfred Nordheim 

Comparative Mass Spectrometry Of The Endogenously Expressed Nuclear And 

Cytoplasmic Exosome 

Silvia Synowsky (Utrecht University, THE NETHERLANDS), Reinout Raijmakers, Albert Heck 

Identification Of Intracellular Molecules Interacting With The Stress-Induced, 

Psoriasis Susceptibility-Related Non-Coding Rna, Prins 

Krisztina Szegedi (Department of Dermatology and Allergology, University of 

Szeged, Hungary), Mária Antal, István Németh, Zsuzsanna Bata-Csörgõ, Attila 

Dobozy, Lajos Kemény, Márta Széll 

A Quantitative Proteomics Approach To Reveal Dynamics In Transcription Factor 

Complexes 

Marc Timmers (University Medical Centre Utrecht, THE NETHERLANDS), Florence 

Mousson, Petra de Graaf, Annemieke Kolkman, Pim Pijnappel, Bart Gevers 

Proteomic Analysis Of Ubxd1: Identification Of Novel Interaction Partners 

Julian Vasilescu (Ottawa Institute of Systems Biology, University of Ottawa, 

CANADA), Daniel Zweitzig, Dale Haines, Daniel Figeys 

Quantification Of Protein Complex Components In Interaction Networks 

Alexander Wepf (Institute for Molecular Systems Biology / Competence Center for 

Systems Physiology and Metabolic Diseases, SWITZERLAND), Timo Glatter, Ruedi 

Aebersold, Matthias Gstaiger 

P-TUE-362 

Contrasting Proteome Biology And Functional Heterogeneity Of The 20s 

Proteasome Complexes 

Glen Young (University of California, Los Angeles, united states), Aldrin Gomes, 

Yueju Wang, Peipei Ping 

Yeast Proteomics; Sparks For New Biology 

P-TUE-363 

P-TUE-364 

P-TUE-365 

P-TUE-366 

P-TUE-367 

P-TUE-368 

P-TUE-369 

P-TUE-370 

A New Approach To Achieving A Fast, In-Depth Biological Overview Of Yeast 

Proteomics Data 

Morten Bern (Proxeon A/S, DENMARK), John Chakel, Ole Vorm 

Comprehensive Curation And Analysis Of Global Interaction Networks 

Lorrie Boucher (Samuel Lunenfeld Research Institute, Toronto, CANADA), Teresa 

Reguly, Bobby-Joe Breitkreutz, Chris Stark, Rose Oughtred, Michael Livstone, 

Ashton Breitkreutz, Valerie Wood, Kara Dolinski, Mike Tyers 

Interrogation Of The Tor Signaling Network In Budding Yeast 

Ashton Breitkreutz (Samuel Lunenfeld Research Institute, Toronto, CANADA), Jeff 

Sharom, Brett Larsen, Zhen-Yuan Lin, Lorrie Boucher, Anne-Claude Gingras, Mike Tyers 

Cystein Modification In Response To Photoinduced Oxidative Stress In 

Saccharomyces Cerevisiae 

Audrey Combes (Institut Jacques Monod, FRANCE), Jean Michel Camadro 

Changing Profiles Of Mannose-1-Phosphate Guanyltransferase (Psa1) Interacting 

Proteins During Batch Culture 

Ville Parviainen (Haartman Institute, FINLAND), Sakari Joenväärä, Pirkko Mattila, 

Risto Renkonen 

Analysis Of Basal And Activated Pre-Initiation Complexes With Itraq Based 

Proteomics 

Timothy Sikorski (Harvard Medical School, UNITED STATES), Scott Ficarro, Jignesh 

Parikh, Manor Askenazi, Stephen Buratowski, Jarrod Marto 

A Modular Network Regulates Longevity In Yeast 

Vladimir Titorenko (Concordia University, Biology Department, CANADA) 

Differential Expression Proteomics Of A Yeast Mutant With Low 14-3-3 Protein 

Activity. 

Paul van Heusden (Institute of Biology, Leiden University, THE NETHERLANDS) 

126 127


Wednesday 20 august 

Array Based Proteomics 

P-WED-001 

P-WED-002 

P-WED-003 

The Proteomic Landscape Of In Vitro Growth: A Comparative Analysis Using 

Antibody-Based Proteomics 

Sara Strömberg, Anna Asplund (Uppsala University, SWEDEN), Linn Fagerberg, Adila 

Elobeid, Marcus Gry, Kenneth Nilsson, Peter Nilsson, Rebecca Rimini, Mathias Uhlen, 

Fredrik Ponten 

Hyphenation Of Surface Plasmon Resonance Imaging To MALDI Mass 

Spectrometry By On-Chip MALDI MS Analysis 

Sophie Bellon (Genoptics, Orsay France, FRANCE), William Buchmann, Florence 

Gonnet, Nathalie Jarroux, Marielle Anger-Leroy, Regis Daniel 

Antibody Microarray Scan Of 725 Antibodies To Identify Biomarkers Of 

Radioresistance 

Laura Smith, Omar Qutob, Mark Watson, Andrew Beavis, Michael Lind, Philip Drew, 

Lynn Cawkwell (University of Hull, UNITED KINGDOM) 

P-WED-012 

P-WED-013 

P-WED-014 

P-WED-015 

Anti-Angiogenic Effect Of A Cell Permeable Peptide, P11, On Huvec 

Proliferation Via Analysis Of Differential Protein Expression Profiling Using 

ProteoChip-Based Antibody Microarray. 

In-Cheol Kang (Department of Biological Science, Biochip Research Center, Hoseo 

University, KOREA) 

Development Of Screening Method Of Breast Cancer Based On Multiple Serum 

Proteins Using Diagnostic Algorithm 

Byoung-Kwon Kim (Department of Pathology, Seoul National University Hospital, 

KOREA), Chul Woo Kim, Dong-Young Noh, Jong Won Lee, Pil Je Park 

Protein Microarrays As Tool For The Quantitative Analysis Of Signal 

Transduction In Tumor Samples 

Ulrike Korf (Molecular Genome Analysis, German Cancer Research Center, 

GERMANY), Christian Löbke, Frauke Henjes, Heiko Mannsperger, Christian Schmidt, 

Holger Sültmann 

Dub-1, A Fate Determinant Of Dynein Heavy Chain In B-Lymphocytes, Is 

Regulated By The Ubiquitin-Proteasome Pathway 

Min-Young Lee (Cell and Gene Therapy Research Institute, Graduate School of Life 

Science and Biotechnology, Pochon Cha University, Cha General Hospital, KOREA), 

Brijesh S. Ajjappala, Myung-Sun Kim, Suresh Ramakrishna, YU-Kyoung Oh, Kwang- 

Hyun Baek 

P-WED-004 

P-WED-005 

P-WED-006 

P-WED-007 

Withdrawn 

An Automated Quantitative Platform For The Analysis Of Biomarkers In Tissue 

Jason Christiansen (Historx, UNITED STATES), Mark Gustavson, Robert Pinard, 

Jane Mayotte, Brian Bourke, Wendy Davis 

Cladribine And Fludarabine Induce Proteomic Changes In B-Lymphoproliferative 

Disorders 

Richard Christopherson (School of Molecular and Micobial Biosciences, University 

of Sydney, AUSTRALIA), Swetlana Gez, Carlos Cassano, Stephen Mulligan, Larissa 

Belov, Pauline Huang 

Multiplexing Immunoassay Platforms: Are They Appropriate For The Biomarker 

Discovery Pipeline? 

Qin Fu (Johns Hopkins University, Department of Medicine, Bayview Proteomics 

Center, UNITED STATES), Jennifer van Eyk 

P-WED-016 

P-WED-017 

P-WED-018 

P-WED-019 

Establishing A High Throughput Platform For Constructing Monoclonal Antibody Bank 

Ching-Yu Lin (Graduate Institute of Applied Science and Engineering, Catholic Fu-Jen 

University, TAIWAN), Jen-Chieh Lee, Han-Min Chen 

Novel Method For Detection Of Activated Transcription Factors In Human 

Gestational Tissues 

Karen Oliva (Translational Proteomics, Baker Heart Research Institute, AUSTRALIA), 

Martha Lappas, Gillian Barker, Greg Rice 

MALDI-Ms Readable Protein Arrays 

Richard Goodwin, Ekaterina Mckenna, Andrew Pitt (Institute of Biomedical and Life 

Sciences, University of Glasgow, UNITED KINGDOM) 

Mapping The Human Proteome - A Comprehensive In Situ Analysis Of Protein 

Profiles In Normal And Cancer Cells 

Fredrik Ponten (Uppsala University, SWEDEN) 

P-WED-008 

P-WED-009 

P-WED-010 

P-WED-011 

Celluspots Peptide Arrays For Immunodiagnosis And Kinase Profiling 

Heinrich Gausepohl (Intavis Bioanalytical Instruments Ag, GERMANY), Evelyn 

Rossmann, Ole Brandt, Reinhard Wallich 

Large Scale Comperative Rna And Protein Expression Analysis 

Marcus Gry (Dept of Proteomics, SWEDEN) 

Generation Of Phosphorylation Profiles For Cancer Biomarker Research On 

Peptide Microarrays 

Riet Hilhorst (Pamgene International Bv, THE NETHERLANDS), Liesbeth Houkes, 

Adriënne van Denberg, Rob Ruijtenbeek 

Nanobiochips For Proteomics And Diagnostics 

Yury Ivanov (Institute of Biomedical Chemistry Rams, RUSSIAN FEDERATION), S 

Nikitina, T Pleshakova, A Ivanov, A Kaysheva, P. Frantsuzov, A Archakov 

P-WED-020 

P-WED-021 

P-WED-022 

P-WED-023 

Multiparametric Protein Analyses From Core Needle Biopsies Of Primary Breast 

Cancer Lesions 

Thomas Joos, Nicole Schneiderhan-Marra (Nmi Natural and Medical Sciences 

Institute at the University of Tubingen, GERMANY), Cornelia Kazmaier, Karin Koretz, 

Georg Sauer, Rainer Muche, Helmut Deissler 

Profiling Cancer Proteomes With Complex Antibody Microarrays 

Christoph Schroeder (German Cancer Research Center, Functional Genome 

Analysis, GERMANY), Alexandra Nieters, Sven Rueffer, Jakob Linseisen, Kurt 

Fellenberg, Joerg D. Hoheisel 

Peptide Microarrays For Immune Monitoring And Biomarker Discovery 

Mike Schutkowski (Jpt Peptide Technologies GmbH, GERMANY) 

Antibody Suspension Bead Arrays – An Application For Serum And Plasma 

Analysis Within Antibody Proteomics 

Jochen Schwenk (Department of Proteomics, School of Biotechnology, Kth – Royal 

Institute of Technology, SWEDEN), Marcus Gry, Rebecca Rimini, Mathias Uhlén, 

Peter Nilsson 

128 129

P-WED-024 

P-WED-025 

P-WED-026 

P-WED-027 

P-WED-028 

Biomarkers Iii 

P-WED-029 

P-WED-030 

P-WED-031 

P-WED-032 

P-WED-033 

P-WED-034 

P-WED-035 

Profiling Post-Translational Modification Activity In Complex Biological Mixtures 

Using Protein Microarray Technology 

Charles Spruck (Sidney Kimmel Cancer Center, UNITED STATES), Sonia del Rincon, 

Jeff Rogers 

An Antibody-Based Proteomics Approach To Identify Diagnostic And Prognostic 

Markers In Malignant Melanoma 

Sara Stromberg (Dept of Genetics and Pathology, Uppsala University, SWEDEN), 

Margret Agnarsdottir, Anna Asplund, Fredrik Ponten 

Production Of Hen Egg Yolk Antibodies (Igy) To Human Plasma Proteins 

Sock Hwee Tan (Dept of Chemistry and Biomolecular Sciences, Macquarie University, 

AUSTRALIA), Amit Kapur, Veronika Polaskova, Wai-Kei Shum, Mark Baker 

Tracing Pathway Activities With Kinase Inhibitors And Reverse Phase Protein 

Arrays 

Jan van Oostrum (Zeptosens, SWITZERLAND), Markus Ehrat, Hans Voshol 

Preprocessing And Normalization Of Protein Array Data For Biomarker Discovery 

Zhen Zhang (Ctr for Biomarker Discovery, Johns Hopkins School of Medicine, UNITED 

STATES), Yan Li, C Nicole Rosenzweig, Lori Sokoll, Xiaer Sun, Katherine Osborne, 

Autumn Breaud, Daniel W. Chan 

Identification Of Proteomic-Specific Profiles In Patients With Fibrocystic Breast 

Disease 

Milena Saccomanno (Lab. of Proteomics and Ms, Magna Graecia University of 

Catanzaro, ITALY), Domenica Scumaci, Marco Gaspari, Pierosandro Tagliaferri, 

Francesco Boccardo, Giovanni Cuda 

Tissue Proteomics Of Ovarian Cancer 

Michel Salzet (MALDI Imaging Team, FRANCE), Mohamed El Ayed, Amélie -Laure 

Jacquet, Pierre Collinet, Jean-Philippe Lucot, Denis Vinatier, Isabelle Fournier 

Proteomic Analysis Evidenced Cd148 As A New Biomarker For Mantle Cell 

Lymphoma Diagnosis 

Laurent Miguet, Luc Fornecker, Raoul Herbrecht, Sarah Sanglier-Cianférani (Cnrs- 

Iphc-Dsa-Lsmbo, FRANCE), Alain van Dorsselaer, Laurent Mauvieux 

Early Detection Of Oral Precancer Using Protein Biomarkers 

Tieneke Schaaij-Visser (University of Utrecht, THE NETHERLANDS), Ruud 

Brakenhoff, Albert Heck, René Leemans, Monique Slijper 

A Novel Validated Protein Signature For Prostate Cancer Diagnosis 

Ralph Schiess (Institute of Molecular Systems Biology / Competence Center for 

Systems Physiology and Metabolic Disease, SWITZERLAND), Igor Cima, Silke Gillessen, 

Vinzenz Lange, Arnoud Templeton, Thomas Cerny, Wilhelm Krek, Ruedi Aebersold 

Urinary Proteomic Biomarkers In Coronary Artery Disease 

Eric Schiffer (Mosaiques Diagnostics and Therapeutics Ag, GERMANY), Lukas U. 

Zimmerli, Janet K. Snell-Bergeon, David M. Maahs, Harald Harald Mischak, Anna F. 

Dominiczak 

Analysis Of The Immune System: Whole Blood Stimulation Assays And Multi- 

Analyte Profiling 

Thomas Joos, Nicole Schneiderhan-Marra, Mike SpaIn, Jim Mapes, Sonja Volk (Nmi 

Natural and Medical Sciences Institute at the University of Tubingen, GERMANY), 

Marion Schneider, Manfred Schmolz 

P-WED-036 

P-WED-037 

P-WED-038 

P-WED-039 

P-WED-040 

P-WED-041 

P-WED-042 

P-WED-043 

P-WED-044 

P-WED-045 

P-WED-046 

P-WED-047 

Identification Of Differentially Expressed Proteins In Breast Cancer Subtypes By 

Dige And MALDI-TOFms 

Daniela Schulz (Institute of Pathology, Helmholtz Zentrum München, German 

Research Center for Environmental Health, GERMANY), Claudia Böllner, Ulrike Reich, 

Gerry Thomas, Heinz Höfler, Michaela Aubele 

Annexin A3 In Urine: A Novel Biomarker For Prostate Cancer Superior To Psa 

Gerhard Schwall (Proteosys Ag, GERMANY), Slobodan Poznanovic, Karlfried Groebe, 

Martin Schostak, Markus Müller, Helmut Klocker, Joerg Hennenlotter, Susan 

Feyerabend, Arnulf Stenzel, Andre Schrattenholz 

Comparative Analysis Of Intestinal Epithelial Cells’ Secretome And Exosomes 

Irmgard Schwarte-Waldhoff (University of Bochum, Med. Clinic, Imbl, GERMANY), 

Susanne Klein-Scory, Hanna Diehl, Christian Stephan, Katja Kuhlmann, Andrea 

Tannapfel, Kai Stühler, Helmut MeYer, Wolff Schmiegel, Bettina Warscheid 

Transcriptomic And Proteomic Analysis Of Liver Cancer In Hbx Tg Mice 

Je Kyung Seong (Seoul National University, KOREA), Yu Hee Lee, Sae Jin Oh, Kyung 

Jin Roh, Dae Yul Yu 

New Protein Biomarkers That Distinguish Between Aggressive And Indolent 

Chronic Lymphocytic Leukemia 

Zhouxin Shen (Cell and Developmental Biology, University of California, UNITED 

STATES), Han-Yu Chuang, Laura Z. Rassenti, Thomas J. Kipps, Steven P. Briggs 

Maximizing Technical Reproducibility By Multi-Instrument Alignment Allows 

In-Depth And Timely Proteomic Analysis Of Large Cohort Of Clinical Samples: 

Kidney Function 

Simon Sheng (Johns Hopkins University, UNITED STATES), Andrew Meng, Helena 

Skalnikova, Qin Fu, Jie Zhu, Jennifer van Eyk 

MALDI-TOF Ms Is Perspective Method For Profiling Biomarkers Bound To 

Albumine To Detection Lung Cancer 

Valeriy Shevchenko (N.N. Blokhin Russian Cancer Research Center, RUSSIAN 

FEDERATION), Natalia Arnotskaya, David Zaridze 

Quantitative Proteomics Study Of Breast Cancer Cell Lines Isolated From A 

Single Patient 

Qian Shi (Fudan University, CHINA), Bo Gu, Xiaoen Xu, Meng Qiao, Ping Wei, Yinghua 

Jiang, Jing Lu 

Targeted Proteomics Of Rat Liver Preneoplastic Lesions Using Laser Capture 

Microdissection Coupled With iTRAQ® Reagents 

Takeshi Shibata (Applied Biosystems Japan Ltd, JAPAN), Anna Kakehashi, Masayo 

Inoue, Masato Aoshima, Mayumi Shindo, Kenichi Kudo, Takuichi Tsubata, Sumie Ando, 

Hideki Wanibuchi 

Study Of Lysozyme / Lipocalin Ion Ratio In Tear With Age By MALDI-TOF 

Jentaie Shiea, Li-Hua Lo (National Sun Yat-Sen University, TAIWAN) 

Rapidly Screening Of Albuminuria Using Matrix-Assisted Laser Desorption 

Ionization/Time-Of-Flight Mass Spectrometry 

Jentaie Shiea, Huan-Yao Wang (Department of Chemistry, National Sun Yat-Sen 

University, TAIWAN), Yi-Tzu Cho, Li-Hua Lo, Deng-Chyang Wu, Min-Zong Huang 

Rapid Diagnosis Of Hematuria And Hemoglobinuria Using Matrix-Assisted Laser 

Desorption Ionization/Time-Of-Flight Mass Spectrometry 

Jentaie Shiea, Yi-Hsuan Chen (National Sun Yat-Sen University, TAIWAN), Li-Hua Lo, 

Deng-Chyang Wu, Min-Zong Huang 

130 131

P-WED-048 

P-WED-049 

P-WED-050 

P-WED-051 

P-WED-052 

P-WED-053 

P-WED-054 

P-WED-055 

P-WED-056 

P-WED-057 

Rapid Detection Of Hemoglobins As Ischemic Stroke Biomarkers In Serum By 


Jentaie Shiea, Poyin Huang (Department of Neurology, Kaohsiung Medical University 

Chung-Ho Memorial Hospital, Kaohsiung Medical Univ., TAIWAN), Li-Hua Lo, Ching- 

Kuan Liu, Yi-Hsuan Chen 

Development Of Novel Biomarkers For Breast Cancer In North Indian Population 

Yogeshwer Shukla (Indian Institute of Toxicolgy Research, Lucknow, INDIA), Jasmine 

George, Preeti Roy, Pranav Chaturvedi, Shailendra Kumar, Sandeep Kumar 

Cyclic Abundant Plasma Immuno-Depletion (Capi) 

Wai-Kei Shum (Dept of Chemistry and Biomolecular Sciences, Macquarie University, 

AUSTRALIA), Amit Kapur, Veronika Polaskova, Sock-Hwee Tan, Mark Baker 

Novel Urinary Peptidomic Analysis For Acute Rejection Monitoring For Renal 

Transplants 

Tara Sigdel (Stanford University Medical School, UNITED STATES), Xuefeng Ling, Ken 

Lau, Irwin Lau, James Schilling, Minnie Sarwal 

Seppro® Fractionation Platform For Enhanced Detection Of Biomarkers In 

Biofluids. 

Sergey Sikora (Genway Biotech, Inc., UNITED STATES), Xiangming Fang, Li Deng, 

Matthew Landry, Wei-Wei Zhang 

Withdrawn 

Proteome Characterization Of Healthy And Asthmatic Nasal Epithelium Cells 

Tania Simoes (Insa, I.P., PORTUGAL), Fatima Vaz, Antonio Bugalho Almeida, Timothy 

Veenstra, Josip Blonder, Deborah Penque 

Markers For Assault - Proteomics And Forensic Science In New Zealand 

Joanne Simons (Forensic Biology Group, Esr (Institute of Environmental and 

Scientific Research), NEW ZEALAND), Sue Vintiner, Penny Truman, Danny Kay, Kelly 

Atkinson 

Prognostic Significance Of Head-And-Neck Cancer Biomarkers Previously 

Discovered And Identified Using iTRAQ-Labeling And Multidimensional Liquid 

Chromatography – Tandem Mass Spectrometry 

KW Michael Siu (York University, CANADA), Ajay Matta, Nootan Kumar Shukla, 

Siddhartha D. Gupta, Ranju Ralhan 

Stabilization Of Proteins And Peptides And Identification Of Peptides In 

Pancreatic Tissue 

Karl Sköld (Denator Ab, SWEDEN), Céline Fernandez, Sofia Waldemarson, Roberto 

Stella, Mikhail Savitski, Marcus Svensson, Mats Borén, Roman Zubarev, Per E. 

Andrén, Peter James 

P-WED-061 

P-WED-062 

P-WED-063 

P-WED-064 

P-WED-065 

P-WED-066 

P-WED-067 

P-WED-068 

P-WED-069 

P-WED-070 

Withdrawn 

Multiple Sclerosis Related Proteins In Csf Identified By Advanced Mass Spectrometry 

Marcel Stoop (Department of Neurology, Erasmus University Medical Centre, THE 

NETHERLANDS), Lennard Dekker, Mark Titulaer, Peter Burgers, Peter Sillevis 

Smitt, Theo Luider, Rogier Hintzen 

Sample Preparation For Molecular Histology 

Martin Schürenberg (Bruker Daltonics, GERMANY), Gongyi Shi, Rolf Müller, Sören O. 

Deininger, Detlev Suckau 

Effect Of 50-Hz Magnetic Fields On Proteome Of Human Sh-Sy5y 

Neuroblastoma Cells 

Marilisa Sulpizio (Department of Biomedical Science, Excellent Center on Aging 

Studies, ITALY), Stefano Falone, Enrica Eleutero, Fabrizio di Giuseppe, Alessandro 

Mirabilio, Fernanda Amicarelli, Carmine di Ilio, Stefania Angelucci 

A Dynamic Urinary Proteomic Analysis Reveals Stable Proteins May Be Used As 

A Source Of Potential Biomarker 

Wei Sun (Department of Pathophysiology, Proteomics Research Center, Institute 

of Basic Medical Sciences, Chinese Academy of Medical Sciences / Peking Union 

Medical College, CHINA) 

Serum Amyloid A As A Serum Biomarker For The Detection Of Lung Adenocarcinoma 

Hye-Jin Sung (Department of Biochemistry, School of Dentistry Kyungpook National 

Univ., KOREA), Jung-Mo Ahn, Jae-Young KIm, Jae-Yong Park, Je-Yoel Cho 

A Novel Approach For Biomarker Discovery In Colorectal Cancer 

Silvia Surinova (Institute of Molecular Systems Biology / Life Science Zürich Phd 

Program ‘Systems Biology of Complex Diseases’ of The Competence Center for 

Systems Physiology and Metabolic Disease, SWITZERLAND), Bruno Domon, Marian 

Hajdúch, Ruedi Aebersold 

Peptidomic Analysis Of Serum And Dialysate In Hemodialysis Patients 

Kenji Tanaka (Protosera, Inc., JAPAN), Lyang-Ja Lee, Yoshihiro Motomiya, Ikurou 

Maruyama 

Csf Proteomics To Identify Candidate Biomarkers For Multiple Sclerosis 

Charlotte Teunissen (Vu University Medical Center Amsterdam, Department of 

Molecular and Cellular Biology and Immunology, THE NETHERLANDS), Marleen Koel- 

Simmelink, Thang Pham, Laura van der Voort, Connie Jimenez 

Als Biomarker Discovery In Cortex Samples By MALDI-TOF, MALDI Imaging, And 

MALDI-Ftms 

Kristin Boggio, Long Li, Michael L. Easterling, Christopher J. Thompson (Bruker 

Daltonics Inc., UNITED STATES), Nathalie Y.R. Agar, Jeffrey N. Agar 

P-WED-058 

P-WED-059 

P-WED-060 

Global Shotgun Proteomic Analysis Of Colorectal Carcinoma 

Robbert Slebos (Vanderbilt University, UNITED STATES) 

Proteomics Of Sepsis 

Afonso Soares (Protein Chemistry Laboratory, Dept of Biochemistry, Institute of 

Chemistry, Ufrj/ Rio de Janeiro Proteomics Network, BRAZIL), Marise Santos, 

Monique Trugilho, Ana Ferreira, Jonas Perales, Gilberto Domont 

Proteomic Analyses Of Retina Of Excitatory Amino Acid Carrier 1 (Eaac1)- 

Deficient Mice 

Nazariy Souchelnytskyi (Karolinska Biomics Center, SWEDEN) 

P-WED-071 

P-WED-072 

P-WED-073 

Identification And Quantification Of Tear Proteins In Sjogren’s Syndrome 

Naohisa Tomosugi (Kanazawa Medical University, JAPAN), Kazuko Kitagawa, Hideyuki 

Tsuchida, Masato Higuchi 

Serum Proteome Analysis Of Patients With Hodgkin’s Lymphoma 

Thanh Tran (Institute of Biotechnology (Ibt), Vietnam), Chi Phan 

Prognostic Biomarker In Esophageal Cancer By 2d-Dige, Tumor Tissues And 

Clinical Data 

Norihisa Uemura (Proteome Bioinformatics Project, National Cancer Center Research 

Institute / Division of Esophageal Surgery, National Cancer Center Hospital / Division 

of Surgical Oncology, Department of Surgery, Nagoya University Graduate School of Medicine, 

JAPAN), Yukihiro Nakanishi, Hoichi Kato, Masato Nagino, Setsuo Hirohashi, Tadashi Kondo 

132 133

P-WED-074 

Identification Of A Tamoxifen Response Protein Profile In Breast Cancer By 

Nanolc-Fticr Ms 

Arzu Umar (Erasmus Mc Rotterdam, THE NETHERLANDS) 

P-WED-087 

Measuring Protein Synthesis As Part Of Proteomics Study On Cancer Cell Proliferation 

Gary Guishan Xiao (Genomics & Functional Proteomics Lab/Orc at Creighton University, 

UNITED STATES), Yingchun Zhao, Shu Lim, Jing Xiao, Robert Recker, Wai-Nang Paul Lee 

P-WED-075 

P-WED-076 

P-WED-077 

P-WED-078 

Addressing Systematic Factors Affecting Ms Molecular Biomarker Discovery 

Andrea Urbani (University of Chieti and Pescara / Irccs-Santa Lucia, ITALY), 

Damiana Pieragostino, Piero del Boccio, Francesca Petrucci, Dante Mantini, Barbara 

Pavone, Valeria Marzano, Federica Forli, Carmine di Ilio, Giorgio Federici 

Sarcoidosis Specific Biomarkers Detection In Bronchoalveolar Lavage 2d 

Proteomes For The Early Diagnosis Of The Disease 

María Uribarri (Proteomika S.L., SPAIN), Hannelore Kothmaier, Susanna Petzmann, 

Alberto Monasterio, José Riera, Daniel Nagore, Laureano Simón, Antonio Martinez, 

Helmut Popper 

Identification Of Carboxymethyl Lysine Modified Serum Proteins From Diabetic Patients 

Meeme Utt (University of Tartu, ESTONIA) 

Segment-Specific Analysis And Quantitation Of The Mouse Nephron Proteome 

Ana Velic (Max-Planck Institute of Biochemistry, GERMANY), Boris Macek, Jürgen 

Cox, Florian Gnad, Maria Lecca, Andre Brändli, Johannes Loffing, Nicolas Picard, 

Carsten Wagner, Matthias Mann 

P-WED-088 

P-WED-089 

P-WED-090 

P-WED-091 

Identificating Nm23-H1 As A Metastasis-Promoting Factor In Nasopharyngeal 

Carcinoma By Proteomic Analysis 

Zhi-Qiang Xiao (Key Laboratory of Cancer Proteomics of Chinese Ministry of Health, 

Xiangya Hospital, Central South University, CHINA), Bin Yi, Mao-Yu Li, Peng-Fei 

Zhang, Cui Li, Zhu-Chu Chen 

Identificating Cathepsin D As A Biomarker For Differentiation And Prognosis Of 

Nasopharyngeal Carcinoma By Laser Capture Microdissection And Proteomic 

Analysis 

Bin Yi (Key Laboratory of Cancer Proteomics of Chinese Ministry of Health, Xiangya 

Hospi, CHINA), Ai-Lan Cheng, Wei-Guo Huang, Zhu-Chu Chen, Zhi-Qiang Xiao 

Changes In Levels Of Prostaglandin D2 Metabolite In Cerebrospinal Fluids Of 

Rheumatoid Patients 

Yukio Yamamoto (Tokyo Metropolitan Institute of Medical Science, JAPAN), Mariko 

Shimamura, Yoshiko Akiota, Hiroshi Sato, Susumu Fukasaku, Kosuke Aritake 

Withdrawn 

P-WED-079 

Identification Of Biomarkers For Depression-Like Behavior In A Mouse Model 

Christian Webhofer (Max Planck Institute of Psychiatry, GERMANY), Yuji Odagaki, 

Birgit Bisle, Elisabeth Frank, Melanie Keßler, Katrin Haegler, Giuseppina Maccarrone, 

Boris Hambsch, Rainer Landgraf, Christoph W. Turck 

P-WED-092 

Cross-Link Of Proteome With Transcriptome For Metastasis Hcc 

Pengyuan Yang (Institutes for Biomedical Sciences and Research Institute For Liver 

Cancer, Fudan University, CHINA), Huali Shen, Fan Zhong, Yang Zhang, Yinkun Liu, 

Fuchu He 

P-WED-080 

P-WED-081 

P-WED-082 

Quantitative Proteomic Analysis Of Hsp90 Modulation Using iTRAQ-Based 

Online Three-Dimensional Nlc-Esi-Cid-Pqd-Ms/Ms 

Jing Wei (Biogen Idec Corp., UNITED STATES), Ben Colson, Mark J. Daniels, Diem 

Tran, Noel Timple, Naveen Dakappagari, Shabnam Tangri, Steve French, Karen 

Lundgren, Alex Buko 

Comparative Proteomic Biomarkers Analysis Of Human Brain Tumors 

Ching-Yi Weng (Institute of Basic Medical Science, College of Medicine, National 

Cheng-Kung University, TAIWAN), Kuo-Chen We, Tsuey-Yu Chang, Chia-Haw Huang, 

Jung-Hsien Chiang, Petrus Tang, Jyh-Wei Shin 

Diagnosis Of Ovarian Cancer By Mass Spectrometry – Getting Closer? 

Mikkel West-Nørager (Statens Serum Institut, DENMARK), Rasmus Bro, Estrid 

Høgdall, Claus Høgdall, Lotte Nedergaard, Niels H.H. Heegaard 

P-WED-093 

P-WED-094 

P-WED-095 

Autoantibody To Tumor Antigen, Alpha 2-Hs Glycoprotein: A Novel Biomarker Of 

Breast Cancer 

Jae Kyo Yi (Cancer Institute, Seoul National University College of Medicine, KOREA), 

Jong Wook Chang, Wonshik Han, Jong Won Lee, Myeong-Hee Yu, Dong-Young Noh 

Comprehensive Analysis Of Cell-Cycle-Associated Biomarkers Induced By Genistein 

Kenichi Yoshida (Meiji University, JAPAN) 

Proteomic Profiling Of Human Lymphatic Endothelial Cells For Analyzing 

Lymphangiogenesis 

Yasunobu Yoshida (Laboratory of Pharmaceutical Proteomics, National Institute of 

Biomedical||Innovation (Nibio)/ Graduate School of Pharmaceutical Sciences, Osaka 

University, JAPAN), Sunao Imai, Tomoaki Yoshikawa, Haruhiko Kamada, Shin-Ichi 

Tsunoda, Yasuo Tsutsumi 

P-WED-083 

Early Protein Biomarkers Associated With Experimentally Induced Gastric 

Cancer In Rats 

Lam Wing Kei (The Proteomic Task Force, Department of Applied Biology and 

Chemical Technology, The Hong Kong Polytechnic University, CHINA) 

P-WED-096 

Identification Of The Potential Biomarkers For Prostate Cancer From Tears And Sera 

Jingjing You (University of New South Wales / Minomic Pty Ltd, AUSTRALIA), Anna 

Fitzgerald, Paul J. Cozzi, Zhenjun Zhao, Pamela J. Russell, Bradley J. Walsh, Mark 

Willcox, Yong Li 

P-WED-084 

P-WED-085 

P-WED-086 

Serum Protein Profiling Of Sle Using Recombinant Antibody Microarrays 

Christer Wingren (Lund University, SWEDEN) 

Proteomic Serum Profiling For Analyzing The Individual Risk For Endometriosis 

Monika Wölfler (Rwth Aachen University, Department of Obstetrics and Gynecology, 

GERMANY), Daniela Otten, Corinna Henkel, Ruth Knüchel-Clarke, Werner Rath, 

Kristina Schwamborn 

Proteomic And Bioinformatic Analysis Of Cancer-Cell Secretome For Biomarker 

Identification 

Chih-Ching Wu (Proteomics Core Laboratory / Molecular Medicine Research Center, 

Chang Gung University, TAIWAN), Chia-Wei Hsu, Chi-De Chen, Jau-Song Yu 

P-WED-097 

P-WED-098 

P-WED-099 

Withdrawn 

Biomarker Screening Using Feature Selection And Analysis Framework 

Su-Jun Li (Shanghai Institutes for Biological Sciences, CHINA), Rong-Xia Li, Wei-Ping 

Jia, Yi-Xue Li, Jia-Rui Wu, Rong Zeng 

Proteome Analysis Of Mouse Lung Cancer Cmt Cell Lines 

Kelan Zhang (Protein Research Group, Dept. of Biochemistry and Molecular Biology, 

University of Southern Denmark, DENMARK), Krzysztof Wrzesinski, Stephen J. Fey, 

Peter Mose Larsen, Xumin Zhang, Peter Roepstorff 

134 135

P-WED-100 

P-WED-101 

Biomarker Discovery In Brain And Plasma Of A Mouse Model Of Trait Anxiety 

Y Zhang (Max Planck Institute f Psychiatry, GERMANY), Md Filiou, B Bisle, E Frank, 

Ms Ksssler, K Haegler, G Maccarrone, B Hambsch, R Landgraf, Cw Turck 

Exploring Biomarkers From Pancreatic Cancer Secretome 

Xiaohang Zhao (State Key Laboratory of Molecular Oncology, Cancer Institute & 

Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, CHINA) 

Cardiovascular Proteome Biology 

P-WED-102 

P-WED-103 

P-WED-104 

P-WED-105 

P-WED-106 

P-WED-107 

P-WED-108 

P-WED-109 

P-WED-110 

P-WED-111 

The Effect Of 7,8-Dihydroxy-3-(3-Methylphenyl) Coumarin On The Protein 

Profiles Of Rat Liver 

Volkan Altay (Marmara University Faculty of Arts and Sciences, Turkey), Basak 

Yuce, Ayse Ogan, Goksel Sener, Mustafa Bulut 

Secretome Analysis Of Human Artery Biopsies In The Search For 

Atherothrombotic Biomarkers 

Gloria Alvarez-Llamas, Fernando de la Cuesta, Veronica M. Darde, Maite Tejerina, 

Rocio Juarez, Luis R. Padial, Angel G. Pinto, Maria G. Barderas, Fernando Vivanco 

(Department of Immunology. Fundacion Jimenez Diaz / Department of Biochemistry 

and Molecular Biology, Universidad Complutense, SPAIN) 

New Insights Into The Pathogenesis Of Ectopic Calcification: A Lesson From The 

Pxe Model 

Giulia Annovi (University of Modena and Reggio Emilia, ITALY), Federica Boraldi, Leon 

J Schurgers, Cees Vermeer, Ivonne Pasquali-Ronchetti, Daniela Quaglino 

Myocardial Proteomic Profiling Helps Identify Different Forms Of Heart Disease 

Gökhan Baykut (Bruker Daltonik GmbH, GERMANY), Matthias Witt, Maria Bergquist, 

Hans-Reinhard Zerkowski, Doan Baykut, Jonas Bergquist 

Lipolytic Activity Profiling In Mouse Liver 

Ruth Birner-Gruenberger (Medical University of Graz, AUSTRIA), Albin Hermetter, 

Manfred Kollroser, Heidrun Susani-Etzerodt, Gerald Rechberger 

Characterization Of The Murine Cardiac Proteome 

Nicolas Bousette (Department of Physiology, University of Toronto, CANADA), 

Thomas Kislinger, Ruth Isserlin, Andrew Emili, Anthony Gramolini 

Changes In The Rat Aorta Proteome With The Dietary Folate Supply 

Patrick Brachet (Institut National de la Recherche Agronomique, FRANCE) 

Proteomic Analysis Of A Mouse Model Of Heart Failure Resulting From Cardiac 

Hypertrophy 

Shaan Chugh (Banting and Best Department of Medical Research, University of 

Toronto, CANADA) 

Isolation Of Human Arterial Intimal Layer And Single Cells For Proteomic 

Analysis 

Fernando de la Cuesta (Fundacion Jimenez Diaz-Capio, SPAIN), Gloria Alvarez- 

Llamas, Veronica M. Darde, Alicia Donado, Aroa S. Maroto, Luis R. Padial, Angel G. 

Pinto, Maria G. Barderas, Fernando Vivanco 

Electron Transfer Dissociation (Etd) Enabled Identification Of Specific 

Phosphorylation Sites In Key Metabolic Enzymes Of Cardiac Mitochondria 

Philip Doran (Ucla, UNITED STATES), Yueju Wang, Ning Deng, Jun Zhang, Chenggong 

Zong, Michael Mueller, Paavo Korge, James Weiss, Rolf Apweiler, Peipei Ping 

P-WED-112 

P-WED-113 

P-WED-114 

P-WED-115 

P-WED-116 

P-WED-117 

P-WED-118 


P-WED-120 

P-WED-121 

P-WED-122 

P-WED-123 

Analysis Of Proteins Secreted During Vessel Maturation In An In-Vitro 

Angiogenesis Model 

Tom Dunkley (Astrazeneca, UNITED KINGDOM), Mark Pearson, Rachel Rowlinson, 

Beverley Isherwood, Simon Barry 

Proteomic Analysis Of Cardiac Targets Involved In Anesthetic-Induced Preconditioning 

Nadine Dyballa (University of Duesseldorf, GERMANY), Christian Schuh, Hendrik 

Vogt, Wolfgang Schlack, Nina Weber, Sabine Metzger 

Lipid Rafts In Platelets - Novel Signalling Platforms? 

Beate Eyrich (Protein Mass Spectrometry and Functional Proteomics Group, Rudolf- 

Virchow-Center for Experimental Biomedicine, GERMANY), Albert Sickmann 

Characterization Of The Human Platelet Proteome By Shotgun Lc-Ms/Ms Analysis 

Marco Gaspari (Dept. Experimental & Clinical Medicine, University of Catanzaro, 

ITALY), Shibu Krishnan, Cosimo Gasparri, Giuseppe Argirò, Patrizia Bianchi, Annalisa 

Fregola, Daniele Torella, Ciro Indolfi, Giovanni Cuda 

Dynamic Cardiac Mitochondrial Proteome Alterations After Ischemia/Reperfusion 

Injury 

Abdelbary Prince (Department of Physiology and Biophysics, Mitochondrial Signaling 

Laboratory, College of Medicine, Cardiovascular and Metabolic Diseases Center, Inje 

University, Korea / Department of Biochemistry, Faculty of Veterinary Medicine, 

Cairo University, Egypt), Hyungkyu Kim, Samy Abdelaziz, Eman Gouda, Jin Han 

Withdrawn 

Effects Of Dilated Cardiomyopathy And Immunoadsorption Therapy On Cardiac 

Gene Expression 

Sabine Ciecholewski (Medical Faculty, University Greifswald, GERMANY), Katrin 

Darm, Leif Steil, Alexander Staudt, Elke Hammer, Sacha Aft van Hijum, Heyo K 

Kroemer, Reinhardt Kandolf, Stephan B Felix, Uwe Völker 

Bh4 Deficiency Impaired Cardiac Mitochondrial Function 

Hyoung Kyu Kim (Department of Physiology, Colleage of Medicine, Inje University, 

KOREA), Won Sun Park, Abdel Bary Prince, Jin Han 

Analysis Of Protein Profiles In Astemizole And Loratadine-Treated Rat 

Cardiomyocytes 

So Young Kim (Korea Food & Drug Administration, KOREA), Ho-Sang Jeong Ho-Sang 

Jeong, Moon Jeong Ko Moon Jeong Ko, Joon Ik Ahn Joon Ik Ahn, Sun Ok Choi, Hye 

Joo Chung Hye Joo Chung 

Human Plasma Proteome Investigations Into Acute Coronary Microvascular 

Disorders 

Victoria Kopetz (The Queen Elizabeth Hospital, AUSTRALIA), Megan Penno, Peter 

Hoffmann, John Beltrame 

iTRAQ Analysis Of Doxorubicin Effect On Rat Heart Myoblast-Derived Cells H9c2 

Juraj Lenco (Department of Molecular Pathology, Faculty of Military Health 

Sciences, University of Defence, CZECH REPUBLIC), Marek Link, Tomas Simunek, 

Martin Sterba, Jiri Stulik 

Analysis Of The Platelet Proteome 

Urs Lewandrowski (Rudolf-Virchow-Center for Experimental Biomedicine, Protein 

Mass Spectrometry and Functional Proteomics Group, University Würzburg, 

GERMANY), Rene Zahedi, Katharina Lohrig, Dirk Wolters, Stefanie Wortelkamp, 

Thomas Premsler, Albert Sickmann 

136 137

P-WED-124 

P-WED-125 

P-WED-126 

P-WED-127 

P-WED-128 

Participate In The Cardiovascular Gene Ontology Annotation Initiative 

Ruth Lovering (Centre for Cardiovascular Genetics, Department of Medicine, 

University College London, UNITED KINGDOM), Varsha Khodiyar, Emily Dimmer, 

Daniel Barrell, Peter Scambler, Mike Hubank, Rolf Apweiler, Philippa Talmud 

Proteomics, Metabolomics And Immunomics On Atherosclerotic Plaques-Derived 

Microparticles 

Manuel Mayr (Cardiovascular Division, Kings College London, University of London, 

UNITED KINGDOM), David Grainger, Ursula Mayr, Aurelie Leroyer, Guy Leseche, 

Anissa Sidibe, Xiaoke Yin, Basseti Madhu, Aldrin Gomes, John Griffiths 

Phenotyptic Continuum Between Growth And Protection: Analysis Of Organellar 

Sub-Proteomes In The Heart 

Anna Paulsson (University of California, UNITED STATES), Sarah Warburton, Shuxun 

Ren, Sherise Mitchell, Sujing Wang, Yibin Wang, Thomas Vondriska 

Proteomics Characterization Of Hemodialysis Membranes Biocompatibility 

Luisa Pieroni (Fondazione S. Lucia - Irccs, ITALY), Andrea Urbani, Mario Bonomini, 

Santina Lupisella, Barbara Pavone, Sonia Bucci, Vittorio Sirolli, Moreno di Cesare, 

Giorgio Federici, Federica Forli 

Role Of Endothelial Cells As Targets Of Low-Dose Radiation In Cardiovascular 

Diseases 

Franka Pluder (Institute of Radiation Biology, Helmholtz Zentrum München – German 

Research Center for Environmental Health (GmbH), GERMANY), Reetta Nylund, 

Dariusz Leszczynski, Michael Atkinson, Soile Tapio 

P-WED-136 

P-WED-137 

P-WED-138 

P-WED-139 

P-WED-140 

P-WED-141 

Investigating Post-Translational Modifications Of Apo B-100 By Oxidative Stress 

Katrina Thomson (Glasgow University, UNITED KINGDOM), Edina Silajdzic, Laetitia 

Mouls, Corinne Spickett, Andrew Pitt 

Mass Spectrometry-Based Analysis Of Nitroxylated Proteins In The Human 

Platelet Proteome 

Geraldine Walsh (Biomedical Research Centre, CANADA), Michael Hoffman, Dana 

Devine, Juergen Kast 

Proteomic Analysis Of Failed Thrombolysis Following Acute Myocardial Infarction 

Jules Westbrook (Ucd Conway Institute of Biomolecular and Biomedical Research, 

University College Dublin, Ireland) 

Alterations To The Mitochondrial Subproteome With Myocardial Ischemic 

Preconditioning 

Melanie Y. White (Johns Hopkins School of Medicine, UNITED STATES), David A. 

Brown, Brian O’Rourke, Jennifer E. van Eyk 

The Secretome Of Colony Forming Units And Non-Colony Forming Endothelial 

Progenitor Cells 

Xiaoke Yin (Cardiovascular Division, King’s College London, UNITED KINGDOM), 

Ursula Mayr, Colin Evans, Qingzhong Xiao, Qingbo Xu, Manuel Mayr 

A Proteomics Study Of Mouse Brain Endothelial Cells After Oxygen And Glucose 

Deprivation 

Chenggang Zhang (Beijing Institute of Radiation Medicine, CHINA), Yong Gu 

P-WED-129 

Proteomics Analysis Of Role Of Hsp60 In Digitalis-Induced Toxicity In Endothelial 

Cells 

Jie Qiu (Shandong University Qilu Hospital, CHINA), Hai-Qing Gao, Xiao-Pei Cui, Gai- 

Xia Zhao 

P-WED-142 

Tec Tyrosine Kinase Signaling In Cardiac Ischemia And Reperfusion 

Michael Zhang (Departments of Anesthesiology, Medicine and Physiology, University 

of California, UNITED STATES), Sarah Warburton, Sujing Wang, Scherise Mitchell, 

Hiroyuki Mano, Thomas Vondriska 

P-WED-130 

P-WED-131 

Label-Free Quantitative Protein Study Of Plasma In Patients With Coronary 

Artery Disease 

Susanne Ragg (Indiana University School of Medicine, UNITED STATES), Olga Vitek, 

Gunther Schadow, Vladimir Fokin, Nadine Lee, Siegmund Braun, Ilka Ott 

Human Primary Subcutaneous Adipocytes Are Source Of Many Cytokines And 

Chemokines 

Marcel de Vries, Marcel van Bruinenberg, Saed Lahham, Desiree Weening, Andrea 

Venema, Niels Kloosterhuis, Roel Vonk, Farhad Rezaee (University Medical Centre 

Groningen, THE NETHERLANDS) 

P-WED-143 

Activation Of Aortic Endothelial Cells By Oxidized Phospholipids: 

Phosphoproteomic Analysis 

Alejandro Zimman (Pathology & Laboratory Medicine, University of California, 

UNITED STATES), Sharon S. Chen, Evangelia Komisopoulou, Wan Lam Szeto, Judith 

A. Berliner, Thomas G. Graeber 

P-WED-132 

Mlc Degradation Is Associated With Increased Mmp-2 Activity In Neonatal 

Pigs With Hypoxia-Reoxygenation 

Jolanta Sawicka, Justyna Fert-Bober, Po-Yin Cheung, Grzegorz Sawicki (University 

of Saskatchewan, CANADA) 

P-WED-133 

Purification Of Endogenous Cardiac Thick Filament Proteins For Ptm 


Sarah B. Scruggs (University of Illinois at Chicago, Center for Cardiovascular 

Research, UNITED STATES), Peter M. Buttrick, R John Solaro 

P-WED-134 

Proteomic Profiling Of The Cardiomyocyte Plasma Membrane 

Parveen Sharma (Department of Physiology, University of Toronto, CANADA), Alex 

Ignatchenko, Nic Bousette, Andreas Evangelou, Anthony Gramolini, Thomas Kislinger 

P-WED-135 

Four And A Half Lim Domains Protein 1 (Fhl1) Interactions In Mammalian Muscle 

Thiruchelvi Shathasivam (Department of Physiology, University of Toronto, CANADA), 

Parveen Sharma, Alex Ignatchenko, Thomas Kislinger, Anthony Gramolini 

138 139

Integration And Storage Of Proteomics Data 

P-WED-144 

P-WED-145 

P-WED-146 

P-WED-147 

Prose – “Software As A Service” For Quantitative Proteomics 

Stefan Albaum (Center for Biotechnology, Bielefeld University, GERMANY), 

Heiko Neuweger, Sita Lange, Dominik Mertens, Kai Runte, Joern Kalinowski, Tim 

Nattkemper, Alexander Goesmann 

A Common Sequence Database Format In Proteomics 

Pierre-Alain Binz (Swiss Institute of Bioinformatics, Proteome Informatics Group 

/ Geneva Bioinformatics (Genebio) Sa, SWITZERLAND), Eugene A. Kapp, Jim 

Shofstahl, David Creasy, Uniprot Consortium, Jayson A. Falkner, Philip C. Andrews, 

Sean L. Seymour 

The Human Muscle Proteome In Unloading-Induced Atrophy: data Management 

Using Proteus(Tm)Software. 

Gary Coulton (St. George’s, University of London, UNITED KINGDOM), Glen Alder, 

Maarten de Boer, Marco Narici, Simon Swindell, Kevin Jones 

Proteomics Tools And Pipelines Work Packages 3 & 5 Of Prodac (Proteomics 

Data Collection) 

Martin Eisenacher (Medizinisches Proteom-Center, Ruhr-Universitaet Bochum, 

GERMANY), Phil Jones, Lennart Martens, Fredrik Levander, Michael Kohl, Jari 

Häkkinen, Rolf Apweiler, Helmut E. Meyer, Christian Stephan 

P-WED-155 

P-WED-156 

P-WED-157 

P-WED-158 

P-WED-159 

The Psi Semantic Validators – How Compliant Is Your Proteomics Data? 

Samuel Kerrien (European Molecular Biology Laboratory (Embl) – European 

Bioinformatics Institute, Wellcome Trust Genome Campus, UNITED KINGDOM), Luisa 

Montecchi-Palazzi, Florian Reisinger, Bruno Aranda, Andrew R. Jones, Matthias 

Oesterheld, Lennart Martens, Henning Hermjakob 

Proteincv: Hierarchical Statecharts Data Model For Molecular Information On 

Proteins 

Per Kraulis (Avatar Software Ab, SWEDEN) 

Miape Generator Tool: A Useful Aid To Report Proteomics Experiments According 

To Miape Guidelines 

Salvador Martínez de Bartolomé (Proteored - National Center for Biotechnolgy- 

Csic, SPAIN), Alberto Medina, Jose María Carazo, Juan Pablo Albar 

A New Web Standard-Based Interface To Report Proteomics Experiments 

J Alberto Medina-Aunon (Proteomics Facility, National Center for Biotechnology 

(Cnb-Csic), Spanish Proteomics Institute (Proteored), SPAIN), J Pablo Albar 

The International Molecular Exchange Consortium 

Sandra Orchard (Embl- European Bioinformatics Institute, UNITED KINGDOM), 

Samuel Kerrien, Bruno Aranda, Arnaud Coel, Andrew Chatr-Arymontri, Lukasz 

Salwinski, Sylvie Ricard Blum, Rolf Apweiler, Henning Hermjakob 

P-WED-148 

Prodac Proteomics Data Collection - Coordinated Action Within The 6th Eu 

Framework Programme 

Christian Stephan (Medizinisches Proteom-Center, Ruhr-Universitaet Bochum, 

GERMANY), Tanja Hardt, Martin Eisenacher, Michael Hamacher, Rolf Apweiler, 

Jari Häkkinen, Rudi Aebersold, Joel Vandekerckhove, Michael J. Dunn, Frederique 

Lisacek, Ron Appel, Simon Hubbard, Pierre-Alain Binz, Martin Blüggel, Herbert 

Thiele, John Cottrell, Helmut E. Meyer 

P-WED-160 

P-WED-161 

Using Discovery To Power Targeted Analysis: From Traps To Triples 

Amol Prakash (Thermofisher Scientific, UNITED STATES), David Sarracino, Michael 

Athanas, Bryan Krastins, Scott Peterman, Kypros Nicholaides, Mary Lopez 

Generalized Method For Statistical Analysis Of Peptide Identification Scores 

From Ms/Ms Data And Database Searching 

Antonio Ramos Fernández (Cnb-Csic, SPAIN) 

P-WED-149 

Epims: A Versatile Tool For Data Management And Analyses Scheduling 

Myriam Ferro (Cea, FRANCE), Véronique Dupierris, Mimi Grebici, Damien Barthe, 

Jérôme Garin, Christophe Bruley 

P-WED-162 

Pass: End-To-End Bioinformatics Data Warehouse For Clinical Proteomics 

Gautam Saxena (Integrated Analysis, Inc., UNITED STATES), Julius C-Zar, Cathy 

Kimani, Edwin Mulwa 

P-WED-150 

Accelerating Proteomics Through Integrated Data Management And 

Bioinformatics Pipelining 

Charles G. Howes, Frank Worsley, Matthew J. Myhre, Mike Sanders, Leonard 

J. Foster (Centre for High-Throughput Biology, Department of Biochemistry & 

Molecular Biology, University of British Columbia, CANADA) 

P-WED-163 

Managing Proteomics Data From Generation And Data Warehousing To Central 

Data Repository 

Herbert Thiele (Bruker Daltonik GmbH, GERMANY), Peter Hufnagel, Jörg Glandorf, 

Gerhard Körting, Martin Blüggel, Martin Eisenacher, Helmut E. Meyer, Christian 

Stephan 

P-WED-151 

World-2dpage Repository: Your Contribution To A Large Proteomics Data 

Network 

Christine Hoogland (Swiss Institute of Bioinformatics, SWITZERLAND), Khaled 

Mostaguir, Ron D. Appel, Frederique Lisacek 

P-WED-164 

Data Processing And Analysis At The Biomolecular Mass Spectrometry And 

Proteomics Group 

Henk W.P. van den Toorn (Uu, THE NETHERLANDS), Madalina Drugan, Robert 

Kerkhoven, Albert Heck, Bas van Breukelen 

P-WED-152 

P-WED-153 

Genome Medicine Database Of Japan Proteomics (Gemdbj Proteomics) 

Mutsumi Hosako (Proteome Bioinformatics Project, National Cancer Center 

Research Institute, JAPAN), Masayo Yamada, Setsuo Hirohashi, Tadashi Kondo 

How Bioinformatics Helps To Achieve And Publish Proteomics Results Following 

Publications Guidelines 

Deltev Suckau, Peter Hufnagel (Bruker Daltonik GmbH, GERMANY), Ulrike 

Schweiger-Hufnagel, Jörg Glandorf, Herbert Thiele, Stefan Weise, Martin Blüggel 

P-WED-165 

P-WED-166 

Integrated Bioinformatics For Biodefense Proteomics 

Cathy Wu (Protein Information Resource, UNITED STATES) 

Miapegeldb: A Web-Based Submission Tool And Public Repository For Miape Gel 

Electrophoresis Documents 

Robin Xavier (University of Geneva / Swiss Institute of Bioinformatics, 

SWITZERLAND), Christine Hoogland, Ron D. Appel, Frederique Lisacek 

P-WED-154 

An Integrated Protein Repository For Mining Proteomics Data 

Christian Ingrell (Proxeon A/S, DENMARK), Peter Venø, Morten Bern 

140 141

Kinase-Protein Substrate Networks 

P-WED-167 

P-WED-168 

P-WED-169 

P-WED-170 

P-WED-171 

Establishing A Kinase Rnai Screen To Investigate Recruitment Of Human 

Kinetochore Proteins Mcm21/Cenp-O and Chl4/Cenp-N 

Mukta Belwal (Eth Zürich, SWITZERLAND) 

Cck Stimulates Peptide Chain Elongation In Mouse Pancreatic Acini And The 

Molecular Mechanism 

Chaojun Duan (Xiangya Hospital, Central South University, CHINA) 

Screen Biomarkers From Human Nasopharyngeal Carcinoma Serum Using A 

Proteomics Approach 

Chaojun Duan (Xiangya Hospital, Central South University, CHINA) 

Nuclear Plcbeta1 Signaling: eef1a2 Is A Novel Phospho-Substrate Of Pkcbeta1 

In Myoblast 

Manuela Piazzi (Cellular Signalling Laboratory, Department of Anatomical Sciences, 

University of Bologna / Cell Biology and Electron Microscopy Laboratory, ITALY), 

Alberto Bavelloni, Gabriella Cioffi, Simona D’Aguanno, Andrea Urbani, Nadir Mario 

Maraldi, Lucio Cocco 

Selective Enrichment And Quantitation Of Phosphoproteins Involved In Cell Proliferation 

Michael Major, Rosa Viner, Michael Rosenblatt, Terry Zhang, Vlad Zabrouskov, Sarah 

Klipp, Navid Haghdoost (Thermo Scientific, UNITED STATES), Barbara Kaboord, John 

Rogers 

Proteome Biology Of Infectious Diseases 

P-WED-172 

P-WED-173 

P-WED-174 

P-WED-175 

P-WED-176 

P-WED-177 

P-WED-178 

P-WED-179 

Large Scale Analysis Of Cross Presented Hla Class I Peptides 

Michal Bassani-Sternberg, Arie Admon (Technion-Israel Institute of Technology, ISRAEL) 

A Proteomic Analysis Of Biofilm Induced By Bile Salts In Vibrio Cholerae O1 

Livia Barbosa, Paulo Mascarello Bisch (Unidade Multidisciplinar de Genômica, Rede 

Proteoma Do Rio de Janeiro – Ibccf, Ufrj, BRAZIL), Wanda von Krüger 

Identification Of The Spi2 Effector Interactome In The Salmonella Cell 

Nat Brown (Griffith University, AUSTRALIA), Scott Nankervis, Lindsay Rogers, 

Leonard Foster 

Proteomes Of Non-Pylori Helicobacter: The Search For Pathogenic Determinants 

Winita Fowsantear, Evelyn Argo, Cheryl Ritchie, ElIzabeth Stewart, Emad El-Omar, 

Georgina Hold, Phil Cash (University of Aberdeen, UNITED KINGDOM) 

New Insights In Dendritic Cells Funtionning Are Revealed By Proteomics 

Thierry Rabilloud, Mireille Chevallet (Cea / Irtsv / Lbbsi, FRANCE), Christian Villiers, 

Hélène Diemer, Patrice Marche, Alain van Dorssealer 

Quorum Sensing Contributes To Proteomic Changes Of Enterohemorrhagic 

Escherichia Coli O157:H7 

Seung-Hak Cho (Korean National Institute of Health, KOREA), Jong-Chul Kim, Bok 

Kwon Lee 

Bile Stress Response Of The Enteric Pathogen Vibrio Cholerae 

Rukhsana Chowdhury (Indian Institute of Chemical Biology, INDIA), Tanusree Das 

Proteomic Analysis Of Nuclear Enriched Fractions From Hcc Liver Tissues 

Erika Codarin (Department of Biomedical Sciences and Technologies, University of 

Udine, ITALY), Chiara D’Ambrosio, Andrea Scaloni, Laura Cesaratto, Carlo Vascotto, 

Umberto Baccarani, Claudio Avellini, Claudio Tiribelli, Franco Quadrifoglio, Gianluca Tell 

P-WED-180 

P-WED-181 

P-WED-182 

P-WED-183 

P-WED-184 

P-WED-185 

P-WED-186 

P-WED-187 

P-WED-188 

P-WED-189 

P-WED-190 


Identification Of Herpes Simplex Virus Type 1 Signaling Targets In Human 

Hepatoma Cells By Functional Organelle Proteomics 

Fernando Corrales (Foundation for Applied Medical Research (Fima), SPAIN), Enrique 

Santamaría, Corinne Potel, Joaquín Fernández-Irigoyen, Rubén Hernández-Alcoceba, 

Alberto Epstein 

Validating Divergent Orf Annotation In M. Tuberculosis Datasets Using A Ltq- 

Orbitrap 

Gustavo de Souza (Gades Institute, Dept. of Immunology and Microbiology, Uib, 

NORWAY), Hiwa Malen, Tina Softland, GisLe Saelesminde, Inge Jonassen, Harald 

Wiker 

Adaptation Of E.Coli Protein Expression In The Mouse Gastrointestinal Tract 

Wolfram Engst (German Institute of Human Nutrition Potsdam-Rehbrücke, 

GERMANY), Carl Alpert, Jacqueline Scheel, Gunnar Loh, Michael Blaut 

Withdrawn 

Proteomic Analysis Of Mycoplasma Penetrans Membrane 

Mario Ferrer-Navarro (Institut de Biotecnologia I Biomedicina, SPAIN), Raquel 

Planell, Sílvia Bronsoms, Núria Colomé, Francesc Canals, Francesc Xavier Aviles, 

Enrique Querol 

Proteomic Study Of Tyk2 Deficient Murine Macrophages In Response To Poly I:c 

Tom Grunert (Institute of Chemical Technologies and Analytics, Vienna University 

of Technology / Institute of Animal Breeding and Genetics, University of Veterinary 

Medicine, AUSTRIA), Birgit Strobl, Martina Marchetti, Ingrid Miller, Marta Radwan, 

Claus Vogl, Manfred Gemeiner, Günter Allmaier, Mathias Müller 

The Secreted Proteome Of Epidemic Cystic Fibrosis (Cf) Pseudomonas 

Aeruginosa Aes-1 

Nathan Hare (School of Molecular and Microbial Biosciences, University of Sydney, 

AUSTRALIA), Colin Harbour, Barbara Rose, Stuart Cordwell 

Altered Proteome In Human Endothelial Cells During Dengue Virus Infection 

Rattiyaporn Kanlaya (Department of Immunology and Immunology Graduate Program, 

Faculty of Medicine Siriraj Hospital, Mahidol University / Medical Molecular Biology 

Unit, Office for Research and Development, Faculty of Medicine Siriraj Hospital, 

Mahidol University, THAILAND), Sa-Nga Pattanakitsakul, Supachok Sinchaikul, Shui- 

Tein Chen, Visith Thongboonkerd 

Hcv Induced Cirrhosis: A Proteomic Approach 

Rizma Khan (University of Karachi, Pakistan), Saadia Zahid, Nikhat Ahmed, M Ataur 

Rahman 

Identification Of Immunogenic Proteins From Chlamydophila Pneumoniae Knih-1 

Kwang-Jun Lee (National Institute of Health, Kcdc, KOREA), Sung-Ha Park, Su-Jin 

Kwon, Young-Chang Kim, Yeon-Ho Kang 

Detection Of Phosphorylcholine-Modified Peptides By Precursor Ion Scanning 

And Mrm 

Christof Lenz, Julia Grabitzki, Günter Lochnit, Donna Potts (Applied Biosystems, 

GERMANY) 

Dissecting Phosphorylcholine-Modified Proteins In The Parasite Plasmodium 

Falciparum 

Julia Grabitzki, Sascha Koncarevic, Katja Becker, Guenter Lochnit (Institute of 

Biochemistry, University Giessen, GERMANY) 

142 143




Proteomic Profile Of The Upper Airways Of Children Suffering Viral Infection 

Luis M. Teran (Instituto Nacional Enfermedades Respiratorias, Mexico), Sabrina 

Rüggeberg, Jose Luis Hernandez, Thomas Franz 

Proteomic Analysis Of Cytoplasmic And Surface Proteins From Yeast Cells, 

Hyphae, And Biofilms Of Candida Albicans 

Martínez-Gomariz Montse (Unidad de Proteómica, Pcm-Ucm, SPAIN), Perumal 

Palani, Mekala Satish, Nombela César, Chaffin W. Lajean, Gil Concha 

Direct Identification Of Uropathogens In Urine Samples With Maldi-TOF-Ms 

Frank Mosel (Institute of Hygiene and Occupational Medicine, GERMANY) 

P-WED-206 

P-WED-207 

P-WED-208 

Proteomic Analysis Of The Antibiotic Response Of Stenotrophomonas Maltophilia 

Laurence van Oudenhove (L-Probe, Ugent, BELGIUM) 

Dynamics Of The Proteomes Of Mammalian Cell Lines During Influenza A Virus 

Infection 

Diana Vester (Bioprocess Engineering, Otto-Von-Guericke University Magdeburg, 

GERMANY), Erdmann Rapp, Yvonne Genzel, Doerte Gade, Udo Reichl 

Quantitative Proteomics Analysis Of Human Macrophage Activation 

Sara Vosmaer (University Medical Centre Groningen / Centre for Medical Biomics, 

THE NETHERLANDS), Marcel de Vries, Roel Vonk, Han Roelofsen 





P-wed-199 

P-WED-200 

P-WED-201 

P-WED-202 

P-WED-203 

P-WED-204 

P-WED-205 

Protein Expression Patterns In Adult Angiostrongylus Costaricensis Nematode 

Ana Neves-Ferreira (Laboratório de Toxinologia, Instituto Oswaldo Cruz, BRAZIL), Juliana 

São Luis, Ester Mota, Ileana León, Richard Valente, Henrique Lenzi, Jonas Perales 

Proteomics To Characterise Activation Of Innate Immunity In Human Keratinocytes 

Tuula Nyman (Institute of Biotechnology, FINLAND), Tiina Öhman, Niina LIetzén, 

Rauna Tanskanen, Sampsa Matikainen 

Proteome Characterization Of Influenza A Virus Infected Human Primary 

Macrophages 

Tiina Öhman (Institute of Biotechnology, University of Helsinki, FINLAND), Johanna 

Rintahaka, Sampsa Matikainen, Tuula Nyman 

Plasmodium Knowlesi And Rheses Red Blood Cell Proteomics 

Erica Pasini (Biomedical Primate Research Centre, THE NETHERLANDS), Matthias 

Mann, Alan Thomas 

Proteomic Analysis Of Host Responses In Human Foreskin Fibroblast Cells During 

Dengue Virus Infection 

Sa-Nga Pattanakitsakul (Medical Molecular Biology Unit, Office for Research and 

Development, Faculty of Medicine Siriraj Hospital, Mahidol University, THAILAND), 

Kamonthip Rungrojcharoenkit, Rattiyaporn Kanlaya, Supachok Sinchaikul, Shui-Tein 

Chen, Visith Thongboonkerd 

Withdrawn 

Proteomics And Its Role In The Clinical Diagnosis Diseasea 

Maryam Saleh (Pasteur Institute of Iran, Iran) 

Fungal Pathogen Pseudallescheria Boydii Secreted Proteins Characterization 

Jan Sklenar (Institute of Microbiology, CZECH REPUBLIC), Bara Fliedrova, Vladimir 

Havlicek 

From Target Identification To Drug Discovery: The Hiv-1 / Human Ledgf - Case Study 

Petra Tafelmeyer (Hybrigenics Sa Services, FRANCE), Philippe Guedat, Jean- 

Christophe Rain, Etienne Formstecher, Fanny Moisant, Anne Pecquery-Texier, 

Richard Benarous, Sabine Barbey, Jean-Marc Paris, Stephane Emiliani 

Effectors Molecules Secreted By The Obligate Intercelluar Pathogen Coxiella 

Burnetti 

Georgios Tsiotis (University of Crete, Dept. Of Chemistry, Greece), Georgios Samoilis, 

Michalis Aivaliotis, Iosif Vranakis, Anastasia Papadioti, Anna Pasroulaki, Yannis Tselentis 

Optimized Alkaline Proteome Mapping Of The Human Parasite Trypanosoma Cruzi 

Marcelo Valle de Sousa (University of Brasilia, BRAZIL), Adriana Magalhães, Sebastien 

Charneau, Jaime Paba, Rafael Guercio, Jaime Santana, Antonio Teixeira, Carlos 

André Ricart 

Proteomics and Epigenetics 

P-WED-209 

P-WED-210 

P-WED-211 

P-WED-212 

P-WED-213 

P-WED-214 

P-WED-215 

P-WED-216 

P-WED-217 

On The Protein Profile Of Pxe Fibroblasts: From Genetic To Epigenetic 

Pathogenesis 

Federica Boraldi (University of Modena and Reggio Emilia, ITALY), Giulia Annovi, 

Deanna Guerra, Roberta Tiozzo, Ivonne Pasquali-Ronchetti, Daniela Quaglino 

Differential Proteomics For Priamry And Secondary Polyposis And Cftr Network. 

Ludovic Jeanson, Chiara Guerrera, André Coste, Estelle Escudier, Serge Amselem, 

Aleksander Edelman (Inserm / Université Paris Descartes / Plateau Proteome 

Necker, FRANCE) 

Searching For Proteins Involved In Lymphoma: A Network Of Proteomic And 

Transcriptomic Clues 

Anouk Emadali (Cea, Dsv, Irtsv, Laboratoire D’Etude de la Dynamique Des 

Protéomes, FRANCE), Sylvie Kieffer, Christophe Masselon, Mary Callanan, Sophie 

Rousseaux, Saadi Khochbin, Jérôme Garin, Myriam Ferro 

Proteomic Analysis Of Protein Complement During Honeybee (Apis Mellifera) 

Drone Egg Development 

Jianke Li (Institute of Apicultural Research, Chinese Academy of Agircultural 

Science, CHINA) 

Proteomic Analysis To Evaluate The Effects On Colon Cancer Cells Of A Novel 

Hdac Inhibitor 

Alberto Milli (Universitã Degli Studi di Verona, Dip. Scientifico E Tecnologico, 

Laboratorio di Proteomica, ITALY), Daniela Cecconi, Lello Zolla, Franco Zunino, 

Federico Odreman, Pier Giorgio Righetti 

Human Corneal Epithelial Cell Migration: An Epigenetic Approach 

Syed Zulfiqar Ali Naqvi (Neurochemistry Research Unit, Department of 

Biochemistry, University of Karachi / Research Laboratory, Department of Biological 

& Biomedical Sciences, Aga Khan University, Pakistan), Shamim Mushtaq, Anwar 

Ali Siddiqui, Nikhat Ahmed 

A Mass Spectrometric Analysis Of Embryonic Zebrafish Proteins 

Angel Pizarro (University of Pennsylvania, UNITED STATES), Margaret Lucitt, Tom 

Price, Tilo Grosser, Weichen Wu, Anastasia Yocum, Christoph Seiler, Michael Pack, 

Ian Blair Blair, Garret Fitzgerald 

Proteomic Analysis Of Models Of Ovarian Cancer Tumour Suppression 

John Sinclair (Ucl, UNITED KINGDOM) 

Efficient Procedures For Avoiding Human Keratin Contaminations During 2d Gel 

Proteomics Analysis 

Bo Xu (Niigata University, JAPAN), Zongjiang Zhao, Ying Zhang, Yutaka Yoshida, 

Eishin Yaoita, Tadashi Yamamoto 

144 145

Proteomics Of The Nervous Systems 

P-WED-218 


P-WED-220 

P-WED-221 

Enhanced Peptide Extraction In Combination With Targeted Ms For Improved 

Identification Of The Nervous Tissue Peptidome 

Maarten Altelaar (Biomolecular Mass Spectrometry and Proteomics Group, Utrecht 

University, THE NETHERLANDS), Shabaz Mohammed, Roger Adan, Albert Heck 

Withdrawn 

Neuropeptidomic And Imaging Ms Strategies For Studying Experimental 


Per Andren (Uppsala University, SWEDEN), Maria Falth, Anna Nilsson, Karl Skold, 

Marcus Svensson, Mats Boren, Malin Andersson, David Fenyo, Per Svenningsson 

Seldi-Tof Ms and MALDI-TOF-Tof Ms Detection Of Proteomic Biomarkers For 

Glaucoma In Neuroretinal Cells 

Katharina Bell (Experimental Ophthalmology, Dept. of Ophthalmology, University of 

Mainz, GERMANY), G Seigel, N Pfeiffer, FH Grus 

P-WED-229 

P-WED-230 

P-WED-231 

P-WED-232 

Protein Expression Changes Involved In Early Mitochondrial Dysfunction In 

Senescence-Accelerated Mouse Revealed By Comparative Proteomic Analysis 

Jianguo Ji (Department of Biochemistry and Molecular Biology, College of Life 

Sciences, National Laboratory of Protein Engineering and Plant Genetic Engineering, 

Peking University, CHINA) 

Quantitative Proteomics Analysis Of Specific Carbonylated Proteins In The 

Temporal Lobe Of Aged Rat: The Deterioration Of Antioxidant System 

Shaoyi Ji (The National Laboratory of Protein Engineering and Plant Genetic 

Engineering, College of Life Sciences, Peking University, CHINA) 

Comprehensive Analysis Of Human And Chimpanzee Brain Proteomes 

Philipp Khaitovich (Cas-Mpg Institute for Computational Biology, CHINA), Xing Fu, 

Ning Fu, Wei Chen, Svante Paabo, Rong Zeng 

Interindividual Differences In Protein Identities And Abundances In Cerebrospinal 

Fluid Of Controls 

Robert-Jan Lamers (Erasmus Mc, THE NETHERLANDS) 

P-WED-222 

P-WED-223 

P-WED-224 

P-WED-225 

Identification Of Novel Abeta/App Isoforms In Human Cerebrospinal Fluid And 

Plasma 

Ann Westman-Brinkmalm (Clinical Neurochemistry Laboratory, Sahlgrnska University 

Hospital, SWEDEN), Erik Portelius, Gunnar Brinkmalm, Henrik Zetterberg, Kaj 

Blennow 

Reliable Biostatistical Analysis Of Differentially Expressed Spots From 2-De Gels 

Oliver Broedel (A+M Proteome Science Berlin, GERMANY), Ulrich Mansmann, Murat 

Eravci, Stephanie Weist, Andreas Baumgartner 

Pi Injuring Effect On A Dopaminergic Nb Cell Line Model And Estradiol Rescue 

Annamaria D’Alessandro (Santa Lucia Foundation-Irccs, Section of Proteomics and 

Metabonomics / University of Rome “Tor Vergata”, ITALY), Simona D’Aguanno, Maria 

Teresa Cencioni, Adamo Diamantini, Luca Battistini, Luisa Pieroni, Sergio Bernardini, 

Giorgio Federici, Andrea Urbani 

Quantitative Analysis Of Differentially Expressed Brain Proteins In The Eae- 

Model For Multiple Sclerosis 

Ruth Daniels (Hasselt University, Biomedical Research Institute (Biomed) and 

Transnationale Universiteit Limburg, School of Life Sciences, BELGIUM), Annelies 

Vanheel, Kurt Baeten, Jerome Hendrix, Johan Robben, Jean-Paul Noben, Piet 

Stinissen 

P-WED-233 

P-WED-234 

P-WED-235 

P-WED-236 

P-WED-237 

Longitudinal Analysis Of Csf In The Assessment Of Alzheimer’s Disease Ivig 

Immunotherapy 

Kelvin Lee (University of Delaware, UNITED STATES), Leila Choe, Norman Relkin 

Comparative Proteome Analysis Of Rat Spinal Cord Protein Expression After 

Severe Traumatic Injury 

Cui Li (Department of Neurosurgery, Xiangya Hospital, Central South University, 

CHINA), Xuejun Li, Lan Gu 

Protein Profiling Of Guillain-Barre’ Patients Cerebrospinal Fluid By 2de And Ms 

Santina Lupisella (Centro Europeo Ricerca Sul Cervello, Irccs-Fondazione Santa 

Lucia / Dipartimento di Medicina di Laboratorio, Policlinico di Tor Vergata, ITALY), 

Simona D’Aguanno, Gian Vico Melzi D’Eril, Alessandra Barassi, Diego Franciotta, 

Alessandra Lugaresi, Sergio Bernardini, Andrea Urbani, Giorgio Federici 

Gfap Is Lipoxidated In Frontotemporal Lobar Degeneration 

Anna Martinez (Universitat de Barcelona, SPAIN), Anna Gómez, Isidre Ferrer 

Amyloid Precursor Protein Intracellular Domain (Aicd) - Dependent Modulation 

Of Protein Abundance 

Thorsten Müller (Medizinisches Proteom Center, Funktionelle Proteomik, Ruhr- 

University Bochum, GERMANY), Anna Ulrich, Katrin Marcus 

P-WED-226 

P-WED-227 

Quantitative Analysis Of 5 Subcellular Fractions From Rat Brain By 2-D Gel 


Murat Eravci (Department of Radiology and Nuclear Medicine (Radiochemistry), 

Charité Universitätsmedizin / A+M Proteome Science, GERMANY), Oliver Broedel, 

Stephanie Weist, Selda Eravci, Andreas Baumgartner 

Oxidation Of Glycolitic Enzymes In Frontal Cortex Occurs In Aging And Is 

Increased In Dlb 

Anna Gomez (Universitat de Barcelona, SPAIN) 

P-WED-238 

P-WED-239 

Altered Protein Expression In The Brain Of Alzheimer’s Disease Mouse Model, 

Appswe/Ps1de9 

Choongseob Oh (Gwangju Institute of Science & Technology (Gist), KOREA), 

Hyunwoo Choi, Eun Sil Park, Jong Hyuk Yoon, Zee-Yong Park, Yung Joon Yoo 

Proteomic Profiling Of Human Ventricular Cerebrospinal Fluid 

Peter Pingerelli, Haroon Saleem, Victor Ozols, Becky Duffy, Charles Adler, Thomas 

Beach, Holly Shill, Marwan Sabbagh, John Caviness, Richard Burns (Barrow 

Neurological Institute, UNITED STATES) 

P-WED-228 

Immune Response Biomarker Profiling In Glaucoma Patients By Means Of Protein 

Micro-Arrays (Protoarray) 

Franz Grus (Experimental Ophthalmology, Dept. of Ophthalmology, University of 

Mainz, GERMANY), D Buhr, Lissa Freeman-Cook, Nils Boehm, Norbert Pfeiffer 

P-WED-240 

P-WED-241 

Proteomic Approach To Determination Of Relative Expression Of Vdac Isoforms 

Mirele Daiana Poleti (Universidade de São Paulo, BRAZIL), Carla Rossini Crepaldi, Andrea 

Cristina Tesch, Flávia Simone Munin, Marcelo Cerqueira César, Marcos Nogueira Eberlin 

Neuropeptidomic Analysis In Embryonic Quail Diencephalon 

Birger Scholz (Department of Pharmaceutical Biosciences, Centre for Reproductive 

Biology, Uppsala University, SWEDEN), Henrik Alm, Anna Mattsson, Anna Nilsson, 

Mikhail Savitski, Maria Fälth, Kim Kultima, Karl Sköld, Per E Andren, Lennart Dencker 

146 147

P-WED-242 

P-WED-243 

P-WED-244 

P-WED-245 

P-WED-246 

P-WED-247 

P-WED-248 

P-wed-249 

P-WED-250 

P-WED-251 

Test Of Protein Extraction Systems For Downstream Protein Profiling Studies 

With Magnetic Beads 

Susanne Schwonbeck (Cea / Institut de Genomique, Centre National de Genotypage, 

FRANCE), Duong Nguyen Thi Thuy, Ivo G. Gut 

Profiling Of Csf By MALDI-Tof Mass Spectrometry: Assessment Of Magnetic 

Bead Based Enrichment 

Somdutta Sen (The Centre for Genomic Application, INDIA), Reena Arora, Sagarika 

Haldar, Jaya Sivaswami Tyagi, Neera Sharma, Vijay Kumar Gupta, Krishnamoorthy 

Narayanasamy 

Exploring The Cerebral Hypoxome 

Roos van Elzen (University of Antwerp, BELGIUM), Bart Ghesquière, Evy Timmerman, 

Kris Geveart, Sylvia Dewilde, Luc Moens 

Explorative Proteomics And Metabolomics Of Human Csf Following Pk-Pd 

Analyses 

Alain van Gool (Organon, A Part of Schering-Plough Corporation, THE NETHERLANDS), 

Benno Ingelse, Maarten Sollewijn Gelpke, Huub-Jan Kleijn, Sushmita Mimi Roy, Chris 

Becker, Felice de Jong, Danny Alexander, Jacques Schipper 

Lc-MALDI Profiling Analysis Of Csf 

Judith Barends (Organon, A Part of Schering-Plough Corporation, THE NETHERLANDS), 

Maarten Sollewijn Gelpke, Alain van Gool, Eckhard Belau, Detlev Suckau, Sven Brand 

Cognitive Performance And Age-Related Changes In The Hippocampal Proteome 

Willard Freeman, Heather Vanguilder (Penn State College of Medicine, UNITED 

STATES), Willard Freeman 

Effects Of Ifn-Beta On Astrocytes: A Proteomic And Nanotechnological 

Approach 

Daniele Vergara (National Nanotechnology Laboratory of Infm-Cnr, Isufi, 

University of Salento, ITALY), Roberta Martignago, Stefano Leporatti, Francesco de 

Nuccio, Giuseppe Nicolardi, Rosaria Rinaldi, Michele Maffia 

Proteomic Analysis Of Hippocampal Remapping 

Evelyn Wang (Exelixis, Inc., UNITED STATES) 

Effects Of Different Post Mortem Conditions On The Proteome Of 11 Rat Brain 

Areas 

Stephanie Weist (A+M Proteome Science, GERMANY), Murat Eravci, Oliver Broedel, 

Selda Eravci 

Toward A Better Understanding Of Human Brain Proteome: Membrane Proteome 

Analysis Of Brain Regions Using 2de 

Saadia Zahid (Neurochemistry Research Unit, Department of Biochemistry, 

University of Karachi, Pakistan), Rizma Khan, Afshan Wasti, AR Asif, Ahsana Dar, 

Nikhat Ahmed 

Quantification Ii 

P-WED-252 

P-WED-253 

P-WED-254 

P-WED-255 

P-WED-256 

P-WED-257 

P-WED-258 

P-WED-259 

P-WED-260 

P-WED-261 

P-WED-262 

Evaluation Of Label-Free Proteomics For Comprehensive Proteome Studies 

Sebastian Link (Medizinisches Proteom-Center, Ruhr-University Bochum, 

GERMANY), Barbara Sitek, Birgit Korte, Christian Stephan, Wolfgang Jabs, Carsten 

Baessmann, Martin Blueggel, Daniel Chamrad, Helmut E. Meyer, Kai Stuehler 

Rapid Sample Processing For Quantitative Proteomics Using High Intensity 

Focused Ultrasounds 

Daniel Lopez-Ferrer (Pacific Northwest National Laboratory, UNITED STATES), Tyler 

Heibeck, Konstantinos Petritis, Kim Hixson, Weijun Qian, Matthew Monroe, Anoop 

Mayampurath, Mikhail Belov, David Camp, Richard Smith 

Quantification Of Glyoxalase I, A Biomarker For A Mouse Model Of Trait Anxiety 

Giuseppina Maccarrone (Max Planck Institute of Psychiatry, GERMANY), Susanne 

Ciniawsky, Boris Hambsch, Christiane Rewerts, BirgiT Bisle, Christoph Turck 

Quantification Of Insulin And Other Biosimilars At Microdosing Levels Using Lc-Ms/Ms 

Louis Maljers (Thermo Fisher Scientific, UNITED STATES), Jonathan Mcnally, Rohan Thakur 

Global Sumo2 Proteome Dynamics In Response To Heat Shock 

Ivan Matic (Department of Proteomics and Signal Transduction, Max Planck Institute 

for Bioch, GERMANY), Filip Golebiowski, Jürgen Cox, Matthias Mann, Ronald Hay 

Targeted Mass Spectrometry Of sirna Based Rna Interference On Gapdh At 

The Protein Level 

Sahana Mollah (Applied Biosystems, UNITED STATES) 

Culture-Derived Isotope Tag (Cdit) Is Powerful Technique For The Quantitative 

Proteomics 

Tatsuji Nakamura (Eisai Co., Ltd. Laboratory of Core Technology, JAPAN), Yoshiya 

Oda, Junro Kuromitsu 

Immunogenicity Testing In The Presence Of Excess Protein Therapeutic Using 

Immunoprecipitation And Quantitative Mass Spectrometry 

Hendrik Neubert (Pfizer Inc, UNITED KINGDOM), Chris Grace, Klaus Rumpel, Ian James 

Vems: A Software For Quantitation And Analysis Of 18o Labelled Peptides 

Miren Josu Omaetxebarria (University of The Basque Country, Biochemistry and 

Molecular Biology Department, SPAIN), Kerman Aloria, Jesus Maria Arizmendi, Rune 

Matthiesen 

Intelligent Use Of Retention Time For Higher Order Multiple Reaction Monitoring 

Multiplexing- Scheduled Mrm Algorithm 

Madalina Oppermann (Applied Biosystems, SWEDEN), Christie Hunter 

Endoplasmic Reticulum Stress In Insulin Producing Ins-1e Cells: A 2d-Dige Analysis 

Lut Overbergh (Legendo, Catholic University Leuven, BELGIUM), Wannes D’Hertog, 

Kasper Lage, Daen Hansen, Etienne Waelkens, Decio Eizirik, Chantal Mathieu 

P-WED-263 

P-WED-264 

Automating High-Throughput Srm Assays Without Sacrificing Sensitivity 

Scott Peterman (Thermo Fisher Scientific, UNITED STATES), Amol Prakash, Mary 

Lopez, David Sarracino, Bryan Krastins, Claire Dauly 

Quantitative Proteome Analysis Of Human Neuronal Cells Treated By Clostridium 

Botulinum C3exoenzyme 

Marika Victoria Muetzelburg, Fred Hofmann, Ingo Just, Andreas Pich (Hannover 

Medical School, Department of Toxicology, GERMANY) 

148 149

P-WED-265 

iTRAQ-Analysis Of A Cell Culture Model For Malignant Transformation 

Stephanie Pütz (Rudolf Virchow Center, Dfg Research Center for Experimental Biomedicine, 

University of Wurzburg, GERMANY), Andreas Böhm, Thorsten Stiewe, Albert Sickmann 

P-WED-278 

Lc-Ms Based Quantitation Of Proteins Separated By Gel-Electrophoresis 

Zoltan Szabo (Department of Medical Chemistry, University of Szeged, HUNGARY), 

Istvan Foldi, Judit Szeline Szomor, Tamas Janaky 

P-WED-266 

P-WED-267 

P-WED-268 

Comparative Analysis Of Urine Proteins By 2d-Hplc Via Fluorescence Detection 

Xiaoqiang Qiao (National Chromatographic R. &. A. Center, Dalian Institute of 

Chemical Physics, CHINA), Junfeng Ma, Lihua Zhang, Zhen Liang, Yukui Zhang 

Acute Proteomic Response Of Muscle To Prednisone And Testosterone 

Erica Reeves (Children’s National Medical Center, UNITED STATES) 

Application Of Qconcat Technology To Protein Quantification 

Jennifer Rivers (University of Liverpool, UNITED KINGDOM), Deborah Simpson, 

Simon Gaskell, Robert Beynon 

P-WED-279 

P-WED-280 

P-WED-281 

Cysteinyl Peptide Enrichment Combined With iTRAQ As An Alternative To Icat 

Vojtech Tambor (Institute of Molecular Pathology, CZECH REPUBLIC) 

Protein Quantitation Using Multiple Reaction Monitoring 

Ning Tang (Agilent Technologies, UNITED STATES), Christine Miller 

Protein Quantification Using Laser Induced Fluorescence Detector And Nanoesi- 

Ecd-Ms/Ms 

Caroline Tokarski, Claude Netter, Jocelyne Tahar, Christian Rolando (Université Des 

Sciences et Technologies de Lille, FRANCE) 

P-WED-269 

P-WED-270 

P-WED-271 

P-WED-272 

P-WED-273 

P-WED-274 

P-WED-275 

P-WED-276 

P-WED-277 

Vems: A Tool To Quantify iTRAQ Labeled Samples 

Eva María Rodríguez Suárez (Cicbiogune, SPAIN), Felix Elortza, Jose María Mato, 

Rune Matthiesen 

Cilair: A Novel, Quantitative Method To Study Tissue Secretome Changes 

Han Roelofsen (University Medical Centre Groningen, Centre for Medical Biomics, 

THE NETHERLANDS), Desiree Weening, Marcel de Vries, Annemieke Hoek, Roel J. Vonk 

Targeted Analysis Of The Proteome And Phosphoproteome Of The Human Hepatocyte 

Anke Schnabel (Medizinisches Proteom-Center, Ruhr-Universitaet Bochum, 

GERMANY), Elmar Langenfeld, Gorden Redlich, Bettina Serschnitzki, Nicolai Bache, 

Andreas Nussler, Ole Jensen, Ulrich Zanger, Helmut Meyer, Katrin Marcus 

Integrated Workflow For Biomarker Discovery, Assay Development And 

Validation Using Tandem Mass Tags 

Peter Schulz-Knappe (Proteome Sciences Plc, Uk / Proteome Sciences R&D GmbH 

& Co Kg, GERMANY), Karsten Kuhn, Darragh O´Brien, Malcolm Ward, Helen Byers 

Identification Of Microrna Targets By Pulsed Silac 

Bjoern Schwanhaeusser, Nadine Thierfelder, Zhou Fang, Manfred Gossen, Nikolaus 

Rajewsky, Matthias Selbach (Max Delbrueck Center for Molecular Medicine, 

GERMANY) 

Up-Regulation Of Glycolytic Enzymes In Proteins Secreted From Human Colon 

Cancer Cells With 5-Fluorouracil Resistance 

Young-Kyoung Shin (Cancer Research Institute and Cancer Research Center, Seoul 

National University / Research Institute and Hospital, National Cancer Center, 

KOREA), Byong Chul Yoo, Kyung Hae Jung, Jae-Gahb Park 

Proteome Analysis Of Lung Carcinoma Cell Line A549 Using Label-Free And Dige 

Techniques 

Barbara Sitek (Ruhr-Universitaet-Bochum, GERMANY), Sebastian Link, Birgit Korte, 

Christian Stephan, Wolfgang Jabs, Carsten Baesmann, Martin Blüggel, Daniel C. 

Chamrad, Helmut E. Meyer, Kai Stühler 

2d Liquid Fractionation Of Proteins For Quantitative Mass Spectrometry In 

Cancer Research 

Helena Skalnikova (Institute of Animal Physiology and Genetics As Cr, V.V.I., CZECH 

REPUBLIC), Jirina Martinkova, Petr Halada, Andreas Ekefjard, Daniel Enetoft, 

Michaela Zilvarova, PeTr Dzubak, Hana Kovarova 

Absolute Quantification Of Plasma And Serum Proteins: Gaucher Disease 

Diagnostic Markers 

Richard Sprenger (Academic Medical Center, THE NETHERLANDS), Craig Dorschel, 

Hans Vissers, Hans Aerts 

P-WED-282 

P-WED-283 

P-WED-284 

P-WED-285 

P-WED-286 

P-WED-287 

P-WED-288 

P-WED-289 

P-WED-290 

P-WED-291 

Top-Down Vs Bottom-Up Stable Isotope Based Proteomics For Protein Quantification 

Yury Tsybin (Biomolecular Mass Spectrometry Laboratory, Ecole Polytechnique 

Fédérale, SWITZERLAND), Thibaut Douche, Hisham Ben Hamidane, Michael Affolter, 

Martin Kussmann, Adrien Schmid 

Pitfalls In Silac Analysis. Illustration By The Identification Of Syk Kinase Substrates 

Romain Larive, Serge Urbach (Igf / Plateforme Protéomique, FRANCE), Kévin 

Contrepois, Joël Poncet, Patrick Jouin, Guilhem Mascré, Alain Sahuquet, Peter 

Coopman, Nadir Bettache 

Using Mascot Scores As Semiquantitative Measure In Proteomic Analyses Of 

Short-Chain Acyl-Coa Dehydrogenase (Scad) Deficiency Patients 

Søren Vang (Research Unit for Molecular Medicine, DENMARK), Christina Bak 

Pedersen, Johan Palmfeldt, Niels Gregersen 

Evaluating Isobaric Tandem Mass Tags For Quantitative Peptidomics. 

Peter Verhaert (Delft University of Technology, Department of Biotechnology, THE 

NETHERLANDS), Martijn Pinkse 

Profiling Of A1 Mes-C-Myc Mouse Embryonic Mesencephalon Cells By Data 

Independent Lc-Ms 

Angela Chambery, Johannes Vissers (Waters Corporation, Ms Technologies Center, 

UNITED KINGDOM), James I. Langridge, Luca Colucci-D’Amato, Augusto Parente 

Automated Optimization Of Triple Quadrupole Parameters For Nanoflow Lc/Ms 

Of Peptides 

Keith Waddell (Agilent Technologies, UNITED STATES), Christine Miller, Ning Tang, S Torvi 

Multiple Approaches To The Identification And Quantification Of The Human Liver 

Proteome 

Yuqin Wang (Swansea University, UNITED KINGDOM), Cathrin Sibert, Brian 

Davidson, Barry Fuller, William Griffiths 

Quantitative Proteomics By Lc-Ms/Ms Multiplex Analysis Of Guanidino-Labeled 

(Glad) Samples 

Patrice Waridel (University of Lausanne, SWITZERLAND), Francesco Brancia, 

Jachen Barblan, Manfredo Quadroni 

Withdrawn 

Transformation Of Ion Intensity Improves Peptide Quantification 

Xiaoyong Wu (Mcgill University, CANADA), Brian Carrillo, Pascal Pleynet, Daniel 

Boismenu, Sylvie Laboissiere, Robert Kearney, Robert Nadon 

150 151

Other 

P-WED-292 

P-WED-293 

Protease Proteomics - Meprin Alpha Releases Vesicular Integral-Membrane 

Protein Vip36 

Daniel Ambort (Department of Medical Biochemistry, University of Gothenburg, 

Sweden / Institute of Biochemistry and Molecular Medicine, University of Berne, 

SWITZERLAND), Daniel Stalder, Manfred Heller, Erwin E. Sterchi 

The Development Of Novel Computer Approaches For Diseases At Its 

Development In Lipid Peroxidation. 

Sukiasyan Astghik (State Engineering University of Armenia, Armenia), Kirakosyan 

Armen, Tadevosyan Artashes, Humbardzumyan Armen 

P-WED-304 

P-WED-305 

Proteomic Analysis Of Exosomes Secreted By Hepatocytes 

Javier Conde-Vancells, Felix Elortza (Proteomics Unit, Cic Biogune , SPAIN), Eva 

Rodríguez-Suárez, Rune Matthiesen, Nieves Embade, Esperanza González, Jose M. 

Mato, Juan M. Falcón-Pérez 

A Proteomic Approach On The Immunomodulatory Effects Of Tx527, A 

1,25-Dihydroxyvitamin D3 Analogue, In Human Dendritic Cells And T 

Lymphocytes 

Gabriela Ferreira (Laboratoryof Experimental Medicine and Endocrinology, Catholic 

University of Leuven (Kul), BELGIUM), Femke Baeke, Lut Overbergh, Evelyne van 

Etten, Kasper Lage, Daniel Hansen, Etienne Waelkens, Christopher Workman, 

Chantal Mathieu 

P-WED-294 

Penguin Plasma Proteomics: Differential Analyses According To The Metabolic Status 

Fabrice Bertile (Iphc-Dsa, Ulp, Cnrs, FRANCE), Laetitia Fouillen, Thierry Raclot, 

Alain van Dorsselaer 

P-WED-306 

Lc-Ms/Ms-Based Proteome Profiling In Dahnia Pulex And Daphnia Longicephala. 

Thomas Frohlich (University Munich - Genecenter - Lafuga, GERMANY), Georg J. 

Arnold, Christian Laforsch 

P-WED-295 

Two-Dimensional Protein Profile Of Human Follicular Fluid: Pregnant X Non-Pregnant 

Ricardo Bertolla (Federal University of Sao Paulo, BRAZIL), Paula Lopes, Edson Lo 

Turco, Agnaldo Cedenho 

P-WED-307 

Rapid On-Membrane Profiling Of Phosphoproteins Using The Piezoelectric 

Technology 

Masaru Furuta (Shimadzu Corporation, JAPAN), Tsuyoshi Nakanishi, Eiji Ando 

P-WED-296 

P-WED-297 

P-WED-298 

The Human Proteome Initiative, Providing A Complete Set Of Human Protein 

Sequences 

Lionel Breuza (Swiss Institute of Bioinformatics (Sib), SWITZERLAND), Amos 

Bairoch, Uniprot Consortium 

Complete De Novo Sequencing Of Allergenic Proteins Using Bottom-Up 

Proteomics And Accurate Moecular Mass Measurement By Fticr-Ms 

Monica Carrera (Instituto de Investigaciones Marinas (Iim), Consejo Superior de 

Investigaciones Cientificas (Csic), SPAIN), Benito Canas, Lorena Barros, Jesus 

Vazquez, Jose Manuel Gallardo 

Identification Of Ubiquitination Sites And Chain Architecture: The Hunt For Red 

K29 

Emma Carrick (Mrc Ppu, University of Dundee, UNITED KINGDOM), Nick Morrice 

P-WED-308 

P-WED-309 

P-WED-310 

Hepatocystin Is Not Secreted In Cyst Fluid Of Hepatocystin Mutant Polycystic 

Livers 

Esmé Waanders, Anke L.L. Lameris, Huub J.M. op den Camp, Wendy Pluk, Jolein Gloerich 

(Nijmegen Proteomics Facility, Radboud University Nijmegen Medical Center, THE 

NETHERLANDS), Simon P. Strijk, Joost P.H. Drenth 

Integration Of Proteomics With Metalloproteomics (Metallomics) And Genomics 

In Sequenced Model Organisms 

Jose Luis Gomez-Ariza (Universidad de Huelva, SPAIN) 

Integrated Plant Metabolomics By Fourier Transform Ion Cyclotron Resonance 


Jun Han (University of Victoria – Genome Bc Proteomics Centre, CANADA), Ryan M. 

Danell, Dustin Lippert, Monica Elloitt, Jörg Bohlmann, Christoph H. Borchers 

P-WED-299 

P-WED-300 

P-WED-301 

P-WED-302 

Hepcidin Measurement, Using Seldi-Tof-Ms, In Clinically Relevant Samples 

Annalisa Castagna (University of Verona, ITALY), Natascia Campostrini, Claudia 

Bozzini, Michela Pasino, Fabiana Busti, Roberto Corrocher, Domenico Girelli 

Functional Role Of 0-Glcnac Modification On Nfkappab 

Jin Won Cho (Yonsei Univ. Dept of Biology, KOREA), Won Ho Yang, Sang Yoon Park, 

Do Hyun Kim 

Protein Microarray Based Target Identification Of Bioactive Protein 

Yoon Sun Cho (Chemical Genomics Laboratory, Department of Biotechnology, College 

of Life Science and Biotechnology, Yonsei University, KOREA), Hye Jin Jung, Ho 

Jeong Kwon, Jung Min Han, Sung Hoon Kim 

Proteome Analysis Of Sulfur-Reducing Hyperthermophilic Archaea Thermococcus 

Onnurineus Na1 

Chi-Won Choi (Korea Basic Science Institute, KOREA), Sung Ho Yun, Sang Oh Kwon, 

Sung Gyun Kang, Jung-Hyun Lee, Gun Wook Park, Jin Young Kim, Jong-Soon Choi, 

Seung Il Kim 

P-WED-311 

P-WED-312 

P-WED-313 

P-WED-314 

Method To Identify And Isolate Maturing B Cells In Neonatal Mice 

Jenny Hansson (Department of Biochemistry and Molecular Biology, University of 

Southern Denmark, Denmark / Nestlé Research Center, SWITZERLAND), Manuel 

Oliveira, Laurent Favre, Jalil Benyacoub, Stephanie Blum, Ole N. Jensen, Martin 

Kussmann 

Mass Spectrometric Analysis Of Sumoylation Of The Transcriptional Repressor Tel 

Paul Hensbergen (Lumc, Biomolecular Mass Spectrometry Unit, Dept. of 

Parasitology, THE NETHERLANDS), Guy Roukens, Mariam Halloul-Ramdhani, Alfred 

Vertegaal, Crina Balog, André Deelder, David Baker 

Engineered Antibody Mimics Selected Against Novel Proteomic Biomarkers Are 

High-Value Reagents 

Peter Hudson (Csiro, AUSTRALIA) 

Using Targeted Proteomics To Id Cellular Targets Of Oxidation In Type 1 Diabetes 

Karen Jonscher (University of Colorado Denver, UNITED STATES), Miriam Kornfeld, 

Gloria Ortiz, Bj Ada, Bjorn Schneidewind, Sonia Flores 

P-WED-303 

Pig As A Model Organism For Human Diseases 

Marianne Danielsen (University of Aarhus, DENMARK), Emøke Bendixen, Marius 

Codrea, Bent Jensen, Lone Rasmussen, Knud Larsen, Christian Bendixen, Jan 

Stagsted, Per Sangild, Andrew Kessel 

P-WED-315 

Identification Of Ca-Binding Proteins In Anabaena Sp Pcc7120 Using Proteomic 

Techniques 

Alberto Jorge-Garcia (Centro de Biologia Molecular Severo Ochoa, SPAIN), Francisco 

Leganes, Francisca Fernandez-Pinas 

152 153

P-WED-316 

P-WED-317 

Withdrawn 

Cold Acclimation In Synechocystis Pcc6803 

John Rowland (Durham University / Nepaf, UNITED KINGDOM), Joanne Robson, 

Jogadhenu Prakash, Glen Kemp, Achim Treumann, Norio Murata 

P-WED-328 

P-WED-329 

Full Genome Analysis Of T-Regulatory Cells Isolated From Cancer Patients 

Alexei Lupatov (V.N. Orechovich Institute of Biomedical Chemistry Rams , RUSSIAN 

FEDERATION) 

Withdrawn 

P-WED-318 


P-WED-320 

P-WED-321 

P-WED-322 

Proteomics Analysis For Vibration Effect On Acl Cells 

Ji-Hye Kim (Korea University, KOREA), Eun-Jeong So, Hyun-Jung Kim, Young-Kwon 

Seo, Jung-Keuk Park, Chan-Wha Kim 

Protein Identification By Means Of Coherent Two-Dimensional Infrared 

Spectroscopy 

David Klug (Imperial College London, UNITED KINGDOM), Frederic Fournier, Elizabeth 

Gardner, Paul Donaldson, Christian Loeffeld, Rui Guo, Keith Willison 

Investigation Of Low Culture Temperature Response In Cho-K1 Cells Using 

Proteomics Tools 

Niraj Kumar (National Institute for Cellular Biotechnology, Ireland), Patrick 

Gammell, Paula Meleady, Michael Henry, Niall Barron, Martin Clynes 

Exploration Of The Human Chondrocyte Proteome By A Dual Prefractionation 

Approach 

Stijn Lambrecht (Ghent University - Department of Rheumatology / Laboratory for 

Pharmaceutical Biotechnology, BELGIUM), Maarten Dhaenens, Gust Verbruggen, 

Dirk Elewaut, Dieter Deforce 

Identification Of Tomato Fruit Allergen Profiles By Two Proteomics Approaches 

Karola Lehmann (Proteome Factory Ag, GERMANY), Sabine Dölle, Margitta Worm, 

Dietmar Schwarz, Philipp Franken, Olivia Bässler, Wolfram Weckwerth, Christian 

Scheler 

P-WED-330 

P-WED-331 

P-WED-332 

P-WED-333 

P-WED-334 

Identification Of Delta Antigen Nuclear Localization Signal Interacting Cellular 

Proteins 

Marta Mendes (Unidade de Biologia Molecular, Centro de Malária E Outras Doenças 

Tropicais, Instituto de Higiene E Medicina Tropical, Universidade Nova de Lisboa, 

PORTUGAL), Carolina Alves, Sérgio Mota, Natália Freitas, Ana Casaca, Déborah 

Penque, Celso Cunha 

Validation Of Procedures For Ms Based Database Search Protocols For Protein 


Jackie Mosely (Durham University, UNITED KINGDOM), Gavin O’Connor, Simon 

Cowen, Sarah Williams 

Role Of Albumin Precursor And Hsp70 Proteins In Wound Healing Of Corneal 

Epithelial Cells 

Shamim Mushtaq (University of Karachi, Pakistan) 

Analysis Of Ubr1 Targets In Patients With Johanson-Blizzard Syndrome And A 

Murine Model 

Karanam Narasimha Kumar (Department of Medicine A / Institute of Functional Genomics, 

Ernst-Moritz-Arndt-University Greifswald, GERMANY), Martin Zenker, Alexander 

Varshavsky, Christian Scharf, Elke Hammer, Markus M. Lerch, Uwe Völker, Julia Mayerle 

Proteomics Analysis Of Human Endothelial Cells Exposed To Mobile Phone Radiation 

Reetta Nylund (Stuk, FINLAND), Hanna Tammio, Niels Kuster, Dariusz Leszczynski 

P-WED-323 

P-WED-324 

Proteomic Analysis Of The Schistosome Proteins Released Into Host Serum 

Feng Liu (Shanghai-Most Key Laboratory of Health and Disease Genomics, Chinese 

National Human Genome Center at Shanghai / Shanghai Jiao Tong University School 

Of Medicine, CHINA), Wei Hu, Shu-Jian Cui, Zhi-Qin Wang, Ze-Guang Han 

Two-Dimensional Protein Profile Of Human Follicular Fluid: Endometriosis X Good 

Responders 

Edson lo Turco (Federal University of Sao Paulo, BRAZIL), Paula Lopes, Ricardo 

Bertolla, Maisa Sakata, Ismael Silva, Agnaldo Cedenho 

P-WED-335 

P-WED-336 

Comparison Of Carbonylated Peptide Enrichment Methods Optimized For Mass 

Spectrometry 

Angela Pereira da Rocha (Protein Research Group, Department of Biochemistry and 

Molecular Biology, University of Southern Denmark, DENMARK), Adelina Rogowska- 

Wrzesinska, Kenneth Bendix Jensen, Peter Roepstorff 

2-De Protein Analysis In Carboplatin Treated Human Renal Tubular Epithelial Cells 

Juliana Perez (Federal University of Sao Paulo, BRAZIL), Maisa Sakata, Ricardo 

Bertolla, Dulce Casarini 

P-WED-325 

P-WED-326 

P-WED-327 

Automated “In-Gel” And “On-Membrane” Digest For High-throughput Protein 


Bjoern H. Bender (Institute of Biochemistry, University Giessen, GERMANY), Anne 

Wagner, Julia Grabitzki, Peter Kiesau, Brian Mcglothlen, Carsten Mang, Peter Engel, 

Guenter Lochnit 

Interfacing Capillary Electrophoresis And 2d-Infrared Spectroscopy For High 

Throughput Proteomics 

Christian Loeffeld (Imperial College London, UNITED KINGDOM), Frederic Fournier, 

Paul Donaldson, Miriam Goyder, Rafal Marszalek, Bo Zhang, Christopher Barnett, 

Keith Willison, David Klug 

Two-Dimensional Protein Profile Of Human Follicular Fluid: Good X Poor Ovarian 

Responders 

Paula Lopes (Federal University of Sao Paulo, BRAZIL), Ricardo Bertolla, Edson Lo 

Turco, Juliana Perez, Dulce Casarini, Agnaldo Cedenho 

P-WED-337 

P-WED-338 

P-WED-339 

P-WED-340 

P-WED-341 

Copmparision Between Different Protein Dectection Techniques For 

Polyacrylamid Gels 

Mario Pink (Institute of Hygiene and Occupational Medicine, University Hospital 

Essen, GERMANY), Albert W. Rettenmeier, Simone Schmitz-Spanke 

Combined Transcriptome/Peptidome Analysis From Odorrana Schmackeri, The 

Chinese Odorous Frog 

Martijn Pinkse (Delft University of Technology, Department of Biotechnology, THE 

NETHERLANDS), Geisa Caprini, Tienbao Chen, Peter Verhaert, Christopher Shaw 

Establishment Of A High-Throughput Generation System Of Monoclonal 

Antibodies Using Multiplexed Immunization And Antigen Microarrays 

Feifei Qi (Beijing Proteome Research Center, CHINA) 

Withdrawn 

Identification Of Novel Human Adipokines 

Anja Rosenow (Maastricht University, THE NETHERLANDS), Edwin Mariman, Johan 

Renes 

154 155

P-WED-342 

P-WED-343 

P-WED-344 

Mitochondrial Proteomic Alterations In Osteoarthritic Human Articular 

ChondrOcytes 

Cristina Ruiz-Romero (Osteoarticular and Aging Research Lab, Proteomics Unit. 

Biomedical Research Center, Ch Universitario Juan Canalejo, SPAIN), Vanessa 

Carreira, Silvia Remeseiro, Valentina Calamia, Jesús Mateos, María Fernández, 

Fausto Galdo, Fj Blanco 

Proteomic Analysis Of Human Chondrocytes Treated With Glucosamine And 

Chondroitin Sulfate 

V Calamia (Osteoarticular and Aging Research Laboratory. Proteomics Unit. 

Biomedical Research Center. Ch Universitario Juan Canalejo, SPAIN), C Ruiz-Romero, 

V Carreira, J Mateos, B Cillero-Pastor, E Montell, J Verges, Fj Blanco 

Differential Effects Of Il-1beta And Tnf-Alpha In The Protein Profile Of Human 

Normal Chondrocytes 

B Cillero-Pastor (Osteoarticular and Aging Research Lab. Biomedical Research 

Center, C.H.U. Juan Canalejo, SPAIN), MJ López-Armada, C Ruiz-Romero, J Mateos, 

M Lires-Deán, B Caramés, B Lema, FJ Blanco 

P-WED-353 

P-WED-354 

P-WED-355 

And Imaging Analysis For Size-Dependent Biological Behavior Of Silica-Nanoparticles 

Tomoaki Yoshikawa (Universitylaboratory of Pharmaceutical Proteomics, National 

Institute of Biomedical Innovation, JAPAN), Hiromi Nabeshi, Toshiki Sugita, Kazuya 

Nagano, Shin-Ichi Tsunoda, Yasuo Tsutsumi 

Placental Plasma Proteome Study Of Human Parturition 

Wei Yuan (University of Bristol, UNITED KINGDOM), Kate Heesom, Neil Avent, 

Andrés López Bernal 

Sensitive Detection Of Oligomeric Conformations Of Proteins By Proximity 

Ligation Assay 

C Annink (Uppsala University, SWEDEN), H Englund, S Darmanis, FE Pettersson, 

O Söderberg, D Sehlin, A Lord, L Nilsson, L Lannfelt, U Landegren and M Kamali-M 

P-WED-345 

Role Of Magnesium Supplementation In Post-Ischemic Acute Renal Failure 

Maisa Sakata (Federal University of Sao Paulo, BRAZIL), Juliana Perez, Ricardo 

Bertolla, Dulce Casarini 

P-WED-346 

Analysis Of Rho Gtpase Activation And Inhibition In A Multiplexed, Miniaturised 

Format 

Thomas Joos, Nicole Schneiderhan-Marra, Michael Schmohl (Nmi Natural and 

Medical Sciences Institute at The University of Tubingen, GERMANY), Stefanie 

Rimmele, Oliver Poetz, Peter Gierschik, Yoel Kloog 

P-WED-347 

Assessment Of Protein Alterations In Platelets Caused By Uvc-, Uvb- And 

Gamma-Irradiation 

Leif Steil (Interfaculty Institute of Genetics and Functional Genomics, Ernst-Moritz- 

Arndt University Greifswald, GERMANY), Thomas Thiele, Elke Hammer, Harald Mohr, 

Ulrich Pohl, Thomas Müller, Andreas Greinacher, Uwe Völker 

P-WED-348 

Proteomic Analysis Of Calcium Oxalate Monohydrate Crystal-Induced 

Cytotoxicity In Distal Renal Tubular Cells 

Visith Thongboonkerd (Medical Proteomics Unit & Medical Molecular Biology Unit, 

Office for Research and Development, Faculty of Medicine Siriraj Hospital, Mahidol 

University, Thailand), Theptida SemaNgoen, Supachok Sinchaikul, Shui-Tein Chen 

P-WED-349 

A High-Throughput Strategy For Validation Of Antibodies Towards Unknown 

Proteins. 

Kenneth Wester (Dept of Genetics & Pathology, Uppsala University, SWEDEN), Anna 

Asplund, Caroline Kampf, Mathias Uhlen, Sophia Hober, Henrik Wernerus, Fredrik 

Ponten 

P-WED-350 

Fluorescent Proteins, Ocean’s Gift To Research And Biotechnology 

Krzysztof Wrzesinski (Protein Research Group, Department for Biochemistry and 

Molecular Biology, University of Southern Denmark, DENMARK), Nicolai Bache, 

Martin Røssel Larsen, Ole Thastrup, Peter Roepstorff Roepstorff 

P-WED-351 

Direct Visualization Of Fluorescent Signals In Protein Gels Using A Backlit Blue 

Light Plate 

Szu-Yu Wu (Institute of Applied Science and Engineering, Fu-Jen Catholic University, 

TAIWAN), Li-Te Chin, Li-Ming Chen, Han-Min Chen 

P-WED-352 

Multistep Approach For Ptms Analysis In An In-Gel Digest With MALDI-Ms/Ms 

Yuzo Yamazaki (Shimadzu Corporation, JAPAN), Masaki Yamada 

156 157

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Monday August 18 th , 2008 

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Information for Oral and 

Poster Presenters 

Oral Presentations 

Speakers should make sure that at least 4 hours before the start of the session, 

their PowerPoint presentations are uploaded in the Speaker Ready Room. Computers 

are available for a last minute check of the presentation and a technician will be there 

to assist. 

The Speaker Ready Room is located in Room M in the Forum Centre 

and will be open at the following hours: 

Saturday, 16 August 08.30 - 18.30 hrs 

Sunday, 17 August 08.30 - 17.00 hrs 

Monday, 18 August 06.30 - 19.00 hrs 

Tuesday, 19 August 06.30 - 20.00 hrs 

Wednesday, 20 August 06.30 - 17.00 hrs 

Speakers are requested to be present in the meeting room at least 10 minutes prior 

to the start of the session to meet the chairperson and to check with the audio 

visual assistant. All meeting rooms are equipped with data projection, a PC and a 

laser pointer. Speakers are not allowed to bring their own laptop. The chairperson will 

time all presentations. It is essential that all presentations are kept to the program 

timetable. 

Poster Presentations 

Posters will be on display in the exhibition and poster area (Hall 10 of the RAI Convention 

Centre). From Monday to Wednesday, posters can be viewed during meeting breaks 

which are scheduled daily on the following hours: 

Morning break 

09.30 - 11.00 hrs 

Lunch break 

12.30 - 14.00 hrs 

Afternoon break 15.30 - 16.00 hrs 

We would like to ask all poster presenters to be present at their poster at least 

during the morning and afternoon break. 

All posters will be on display for one day only, either on Monday, Tuesday or Wednesday. 

Posters will be numbered as P-MON-#, P-TUE-# and P-WED-# respectively (see pages 

68 - 157). 

Posters must be put on the allocated poster board on the day of presentation between 

07.30 and 09.00 hrs. Poster numbers are printed on the poster boards. Fixing material 

will be available in the poster area. Posters should be removed from the poster boards 

between 16.00 and 19.00 hrs. 

The organization will not be responsible for posters that are not removed in time, they 

will be discarded after the congress. 

158 159

Exhibition Information 

The 7th HUPO Annual World Congress expresses its warm thanks to our Exhibitors 

for supporting the Congress. We encourage all delegates to visit the Exhibition and to 

learn more about the products and services on show. The Exhibition is located in Hall 

10, accessible from the first floor of the congress centre. The booth numbers can be 

found on page 20 in this Final Program. 

Exhibition opening hours: 




09.30 - 19.00 hrs 

09.30 - 20.00 hrs 

09.30 - 16.00 hrs 

Exhibition Information / Registration Desk opening hours: 

Saturday 16 August 13.00 - 20.00 hrs 

Sunday 17 August 10.00 - 20.00 hrs 

Monday 18 August 08.00 - 13.00 hrs 

Wednesday 20 August 16.00 - 18.00 hrs 

General Information 

Abstracts 

The abstracts are available on a USB stick which is included in the registration package 

for registered delegates. 

Beach South 

Behind the Auditorium Centre you will find this upmarket city beach ‘Strand Zuid’ 

(Beach South), with elegant beach furniture and a nice bar. It borders the Beatrix Park 

pond, no swimming is allowed but showers are available. DJ’s are playing there during 

the weekends. It is open during the Congress for lunch, dinner or just to relax! 

Coffee and tea breaks 

For registered participants wearing their name badges, coffee and tea during the 

breaks are included in the fee. The coffee breaks on Monday are sponsored by: 

Cloakroom facilities 

A paid cloakroom is situated at the Forum Lounge, near the registration desk. The 

cloakroom will be guarded during Congress hours. The organizers cannot accept liability 

for loss or damage to property. 

Currency and banking 

The local currency is the euro (Eur/€). € 1 = 100 cents. Visa, MasterCard and 

American Express are accepted at the Registration Desk. Foreign currency will not be 

accepted. You are requested to pay with credit card or cash in Euros only. In general, 

all major credit cards are accepted for payment in hotels, restaurants and shops. 

There is an ATM machine in the RAI Convention Center, accessible via the entrance K2 

(exit the Auditorium Center, keep to the left and walk up to the corner, turn left; the 

first entrance is K2. Please ask the receptionist for further directions). There is also 

an ATM machine in the square opposite the RAI (ABN AMRO Bank, Scheldeplein 1-5). 

Banks are open Monday to Friday from 10.00 - 16.00 hrs. 

Disclaimer 

All best endeavours will be made to present the program as printed. However, the 

organizers reserve the right to alter or cancel, without prior notice, any arrangements, 

timetables, plans or other items relating directly or indirectly to the Congress for any 

cause beyond it’s reasonable control. In registering for the 7th HUPO Annual World 

Congress you agree that neither the organizing committee nor the congress secretariat 

accept any liability whatsoever. The organizers accept no liability for personal injuries 

or loss, of any nature whatsoever, or for loss or damage to property either during or 

as a result of the Congress. Participation is completely at the delegate’s own risk. 

The organizers will not be liable and will not compensate for any damage incurred to 

delegates during the Congress. Dutch laws apply. Delegates are advised to acquire 

their own travel insurance and to extend their policy to cover personal possessions 

160 161

as the Congress does not cover individuals against cancellation or bookings or theft 

or damage to belongings. 

Dress code 

Recommended dress code for the Congress and all social functions is smart casual. 

Electricity supply 

Electricity in the Netherlands is supplied at 220V - 50Hz AC. USA, English and some 

other foreign appliances require an adapter for the voltage as well as an adapter for 

the plug. There are no adapters available at the RAI Convention Centre. 

Emergencies 

If you or any other delegate is unwell, an accident or any other emergency occurs, 

while at the Amsterdam RAI Convention Centre, please contact the registration desk 

or any staff member. 

Internet Corner sponsored by WATERS: 

An Internet corner is at the disposal of the Congress delegates during Congress 

opening hours. Wireless internet will also be provided free of charge in this area. No 

access code required. Just select the HUPO 2008 network. 

Language 

The official congress language will be English. No translation arrangements will be made. 

Lost Property 

If you see any unattended parcel, please report to one of the Congress staff members. 

Should you loose anything at the Amsterdam RAI Convention Centre, please enquire 

at the Registration Desk. 

Lunches 

Lunch can be bought in the exhibition hall 10 or at Beach South. 

Messages 

Messages for delegates should be handed in at the Registration Desk. Notification 

of messages will be displayed on the message board next to the Registration Desk. 

Please check the board daily and pick up your messages – they may be urgent. 

Mobile phones 

Mobile phones must be switched off in the meeting rooms. 

Name badges and tickets 

For security purposes, delegates and exhibitors must wear their name badges at all 

times during the Congress. Entrance to the Amsterdam RAI Convention Centre will be 

limited to badge holders only. Replacement of lost name badges can be requested at the 

registration desk (costs € 25). Tickets for social events and excursions will be issued to 

delegates who have booked for these events. Please present your tickets at these events 

and excursions. 

Orange Student Brigade 

A team of enthusiastic students will be at your service. During Congress hours, they 

will provide hospitality support and steward services. They will also serve in most 

of the meeting rooms as technical assistants and can be easily recognized by their 

orange shirts. 

Program changes 

The organizers cannot accept liability for any changes in the program due to external 

or unforeseen circumstances. 

Public Transport 

Amsterdam is a very compact city where your destination usually will not be at a great 

distance. Therefore, Amsterdam is ideal for getting around by foot, bicycle or public 

transport. There is a dense public transport system and tram, metro or bus stops 

are usually around the corner. Cars are less suitable for navigating in Amsterdam. 

Moreover, parking must be paid for in almost the entire city and the rates can be 

substantial. 

How to reach the Amsterdam RAI Convention Center: 

From Amsterdam RAI railway Station: from this station it is a short walk (8 

minutes) to the Convention Center. You can also take tram 4; first stop in front of 

the Convention Center. 

From the Central railway Station: tram 4 

From the Amstel railway Station: bus no. 15 or 62 to the Amsterdam RAI railway 

Station. 

There will be no shuttle service available between Schiphol Amsterdam International 

Airport, the Amsterdam RAI or the Congress hotels. 

Registration and Information: 

The registration desk will be located at the ground floor of the Forum Center 

(Entrance E of The Rai Convention Center). 

Opening hours: 

Saturday 16 August 





09.00 - 19.00 hrs 

08.30 - 18.00 hrs 

07.30 - 18.00 hrs* 

07.30 - 20.00 hrs* 

07.30 - 18.30 hrs* 

* For Corporate Workshops registration from 06.30 hrs. 

Registered participants and students are entitled to: 

Opening ceremony and welcome reception 

Attendance to scientific sessions 

Entrance to the exhibition 

All congress documents 

Coffee and tea during the breaks 

162 163

Registered accompanying persons are entitled to: 

Opening ceremony and welcome reception 

Amsterdam city tour 

Services for the Disabled 

All the rooms at the Congress venue are fully accessible to delegates with 

disabilities. 

Smoking Policy 

In the RAI Convention Centre, smoking is prohibited by law. Smoking is only permitted 

in a few designated areas outside the building. 

Shopping 

Most shops are open from Tuesday through Friday from 9.00 to 18.00 hours, Saturdays 

from 09.00 to 17.00 hours. On Mondays, many shops are closed in the morning. They 

open between 11.00 and 13.00 hours and close at 18.00 hours. Evening shopping 

(until 21.00 hours) is on Thursdays and many shops in the city centre open on Sundays 

from 12.00 to 17.00 hours. 

Time 

Amsterdam is 1 hour ahead of Greenwich Mean Time. 

Tipping 

Service is always included. However, it is customary to tip in restaurants and when 

paying for taxi’s. As a general rule tipping between 5 - 10% should be adequate. 

Taxis 

Taxis can be ordered at the Porter’s Desk in the access hall of the Auditorium. 

Social Program 

opening ceremony & welcome reception 

Date: 

Time: 

Location: 

Dress code: 

Price: 


16:00 - 19:00 hrs 

Amsterdam RAI Convention Centre, Auditorium & Exhibition Area 

Smart casual 

included in the registration fee for registered participants and 

registered accompanying persons. 

The Opening Ceremony will be held in the Auditorium and opened by eminent 

representatives of the international scientific community. Don’t miss this opportunity 

to enjoy this mix of Dutch and international cultural outings! The Opening Ceremony will 

be followed by the welcome reception. 

A welcome reception will be offered to delegates and registered accompanying persons 

at the Exhibition area. Just enjoy each other’s company and mingle while enjoying 

typical Dutch snacks and entertainment. All participants are invited to attend this 

reception of the 7th Annual HUPO Congress so bring your (registered) family and 

friends and have a good start of the congress! 

congress dinner 

Date: 


Time: 

19:00 - 23:00 hrs 

Location: Stopera (acronym for “Stadhuis”=City Hall and the “Opera”=Theatre) 

Departure: By canal boat from RAI Harbour at 18.15 hrs. 

Dress code: Smart casual 

Price: €65,00 

We would like to invite all participants to attend the 7th Annual HUPO Congress 

Dinner. Join us and all the other delegates from around the world on this splendid, 

colorful evening in the heart of Amsterdam. The Stopera is beautifully located right 

on the Amstel river, and the high open foyers overlook the historic panorama of 

Amsterdam. 

164 165

Accompanying Persons 

Tour / Excursion * 

(included in the Accompanying Person’s fee) 

This tour includes a most panoramic drive through the centre and the modern suburbs, 

passing the most important monuments and sights including a stop at the Rembrandt 

windmill. The excursion will end with a canal cruise through the city of Amsterdam and 

to admire the famous 17th century merchant houses with its different gable structures 

and the numerous bridges which makes Amsterdam ‘The Venice of the North’. 

Date: Monday 18 August 

Time: 12:30 - 15:30 hrs 

Rate: €35,00 per person 

Amsterdam city tour 

Tours should have been booked in advance when registering for the congress 

Registration and cancellation conditions are applied to the tours and excursions. 

The cost of tickets cannot be refunded if you do not take part or have not taken 

part in the tour / excursion. 

* Due to an insufficient number of registrations, the following tours had to be cancelled: Aalsmeer, Delft & 

the Hague; Rotterdam and Kinderdijk Windmills; Zaanse Schans; Castles & River Vecht. If you have already 

registered for one of those, you are most welcome to join the other tour. Pease contact the Registration Desk 

for more information. 

Exhibitor and Sponsor Listing 

Abfrontier Co. Ltd 

Stand: 070 

Korea 

Website: www.abfrontier.com 

Agilent Technologies 

Stand: 032 

Website: www.agilent.com/chem 

American Chemical Society 

Stand: 027 

USA 

Website: http://pubs.acs.org 

Applied Biosystems / MDS Analytical Technologies 

Stand: 063 

USA 

Website: www.appliedbiosystems.com 

Atlas Antibodies 

Stand: 025 

Sweden 

Website: www.atlasantibodies.com 

A Publication of the American Chemical Society 

Aushon BioSystems 

Stand: 115 

USA 

Website: www.aushon.com 

Australian Proteome Analysis Facility Ltd 

Stand: 008 

Australia 

Website: www.proteome.org.au 

APAF 

australian proteome 

anaylsis facility 

Axela Inc. 

Stand: 104 

Canada 

Website: www.axela.com 

166 167

BD Biosciences 

Stand: 082 

Belgium 

Website: www.bdbiosciences.com 

BD Diagnostics 

Stand: 080 

Germany 

Website: www.bd.com 

Bio-Rad Laboratories 

Stand: 090 

USA 

Website: www.bio-rad.com 


Stand: 022 

Germany 

Website: www.bdal.de 

Caprotec Bioanalytics GmbH 

Stand: 044 

Germany 

Website: www.caprotec.com 

Digilab Genomic Solutions (UK) Ltd 

Stand: 023 

UK 

Website: www.genomicsolutions.com 

Dionex Corporation 

Stand: 061 

Switzerland 

Website: www.dionex.com 

Dualsystems Biotech AG 

Stand: 073 

Switzerland 

Website: www.dualsystems.com 

Eksigent Technologies 

Stand: 084 

USA 

Website: www.eksigent.com 

Elsevier 

Stand: 078 


Website: www.elsevier.com 

GENOMIC SOLUTIONS 

CovalX AG 

Stand: 083 

Switzerland 

Website: www.covalx.com 

CTMM 


Website: www.ctmm.nl 

Decodon 

Stand: 101 

Germany 

Website: www.decodon.com 

Denator AB 

Stand: 072 

Sweden 

Website: www.denator.com 

C OVAL X 

Solutions for Protein Complex Analysis 

EMBL-European Bioinformatics Institute 

Stand: 047 

UK 

Website: www.ebi.ac.uk 

Epitomics, Inc. 

Stand: 046 

USA 

Website: www.epitomics.com 

EuPA / The Swedish Academy of Pharmaceutical Sciences 

Stand: 074 

Website: www.eupa.org 

GE Healthcare Europe GmbH 

Stand: 052 

Germany 

Website: www.gelifesciences.com 

168 169

Genebio Geneva Bioinformatics 

Stand: 103 

Switzerland 

Website: www.genebio.com 

GenoLogics 

Stand: 100 

Canada 

Website: www.genologics.com 

GenWay Biotech, Inc. 

Stand: 012 

USA 

Website: www.genwaybio.com 

GL Sciences, Inc. 

Stand: 001 

Japan 

Website: www.gls.co.jp 

GenWay Biotech, Inc. 

Protein and Antibody Solutions 

Integrated Analysis, Inc. 

USA 

Website: www.i-a-inc.com 

Invitrogen / Dynal 

Stand: 108 

Scotland, UK 

Website: www.invitrogen.com 

IOS Press 

Stand: 105 


Website: www.iospress.nl 

JPT Peptide Technologies GmbH 

Stand: 003 

Germany 

Website: www.jpt.com 

Hoefer, Inc. 

Stand: 102 

USA 

Website: www.hoeferinc.com 

HUPO 2009 

Stand: 075 

Website: www.hupo2009.com 

HUPO 2010 

Australia 

Website: www.hupo2010.com 

Labcyte, Inc. 

Stand: 110 

USA 

Website: www.labcyte.com 

Ludesi AB 

Stand: 087 

Sweden 

Website: www.ludesi.com 

Merck & Co., Inc. 

USA 

Website: www.merck.com 

TM 

HUPO HQ 

Stand: 076 

Canada 

Website: www.hupo.org 

INTAVIS Bioanalytical Instruments 

Stand: 002 

Germany 

Website: www.intavis.com 

Merck/EMD, Novagen & Calbiochem 

Stand: 107 

USA 

Website: www.emdchemicals.com 

Miltenyi Biotec 

Stand: 030 

Germany 

Website: www.miltenyibiotec.com 

170 171

Nanoxis AB 

Stand: 051 

Sweden 

Website: www.nanoxis.com 

Netherlands Genomics Initiative / Netherlands Proteomics Centre 

Stand: 009 


Website: www.genomics.nl / www.netherlandsproteomicscentre.nl 

Nonlinear Dynamics 

Stand: 037 

UK 

Website: www.nonlinear.com 

Pall Life Sciences 

Stand: 011 

UK 

Website: www.pall.com 

Peaks 

Stand: 031 

Canada 

Website: www.bioinfor.com 

PSS Europe GmbH 

Stand: 045 

Germany 

Website: www.pss-europe.de 

Pressure BioSciences, Inc. 

Stand: 118 

USA 

Website: www.pressurebiosciences.com 

Proteored 

Spain 

Website: www.proteored.org 

Proxeon 

Stand: 004 

Denmark 

Website: www.proxeon.com 

Qiagen 

Stand: 071 

UK 

Website: www.qiagen.com 

RSC Publishing 

Stand: 111 

UK 

Website: www.rsc.org 

R&D Systems Europe Ltd 

Stand: 066 

UK 

Website: www.rndsystems.com 


Stand: 085 

USA 

Website: www.rosettabio.com 

Science International / AAAS 

Stand: 079 

UK 

Website: www.science-int.co.uk 

national institutefor proteomics 

Promega Corporation 

Stand: 042 

USA 

Website: www.promega.com 

Protein Forest, Inc. 

Stand: 086 

USA 

Website: www.proteinforest.com 

SERVA Electrophoresis GmbH / Bridge4Bio 

Stand: 068 

Germany 

Website: www.serva.de 

Shimadzu Europe GmbH 

Stand: 092 

Germany 

Website: www.shimadzu.eu 

172 173

Sigma-Aldrich 

Stand: 026 

USA 

Website: www.sigma-aldrich.com 

Silantes GmbH 

Stand: 005 

Germany 

Website: www.silantes.com 

Syngene 

Stand: 040 

UK 

Website: www.syngene.com 


Stand: 034 

UK 

Website: www.thermo.com 

UVic Genome BC Proteomics Centre 

Stand: 006 

Canada 

Website: www.proteincentre.com 

UVP 

Stand: 007 

UK 

Website: www.uvp.com 

Wiley-VCH Verlag 

Stand: 119 

Germany 

Website: www.wiley-vch.de 

Waters 

Stand: 060 

France 

Website: www.waters.com 

UVic Genome BC 

PROTEOMICS CENTRE 

Your Partner in Advancing Proteomics 

Innovative solutions for quantitative protein and biomarker research 

Applied Biosystems/MDS Analytical Technologies is the leading provider of reliable, high throughput solutions 

that best meet the needs of your entire targeted protein quantitation pipeline. From automating MRM assay 

development to reducing the cost of candidate verification by using a global internal standard, we pioneer systems 

and workflows that help you achieve more. 

See these industry-leading targeted quantitative proteomics solutions in booth #63. 

• 4000 QTRAP ® LC/MS/MS System —The only system to provide MRM quantitation 

plus MS/MS ID confirmation using the MIDAS Workflow 

• MRMPilot Software—Automated MRM methods development and optimization 

• mTRAQ Reagents—Economical solution for accurate quantitative verification 

of biomarker candidates 

• MultiQuant Software—Easy-to-use software optimized for high throughput 

MRM data processing and reporting 

• Scheduled MRM Algorithm—Maximizing MRM dwell times for more robust 

and reproducible quantitation 

Partner with Applied Biosystems/MDS Analytical Technologies. 

We’re leading the way in quantitative proteomics. 

BOOTH #63 

Applera, Applied Biosystems and AB (Design) are registered trademarks of Applera Corporation or its subsidiaries in the US and/or certain other countries. QTRAP is a registered trademark and mTRAQ, MRMPilot, Scheduled MRM 

and MultiQuant are trademarks of Applied Biosystems/MDS Analytical Technologies, a joint venture of Applera Corporation and MDS Inc. MDS Analytical Technologies is a trademark of MDS Inc. 

© 2008 Applera Corporation and MDS Inc. Joint Owners. All rights reserved. 

174 175

16 

7 

6 14 

8 

2 

5 

4 

11 

21 

19 

10 

9 

18 

20 

23 3 

1 

22 

17 

12 

13 

15 

Hotel Map 

Nr. Hotel Nr. Hotel 

1 Hotel Okura Amsterdam 12 Mercure Amsterdam a/d Amstel 

2 NH Barbizon Palace 13 Holiday Inn 

3 Hilton Amsterdam 14 Park Plaza Victoria Amsterdam 

4 NH City Centre 15 Novotel Amsterdam 

5 NH Grand Hotel Krasnapolsky 16 Ibis Amsterdam Centre 

6 Crowne Plaza Amsterdam City Centre 17 Artemis Amsterdam 

7 Renaissance Amsterdam Hotel 18 Vondel Park Plaza 

8 Sofitel Amsterdam 19 Eden Hotel Amsterdam 

9 Park Hotel 20 Trianon Hotel 

10 Eden Rembrandt Square 21 Amstel Botel 

11 Mövenpick Hotel Amsterdam City 22 Hotel Casa 400 

23 Bilderberg Garden Hotel Amsterdam 

176

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