Research Report 2003 - Max-Planck-Institut für molekulare Genetik

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Department of Vertebrate Genomics 14 General information Publications 1998-2003 Manjasetty BA, Delbrück H, Pham D-T, Mueller U, Fieber-Erdmann M, Scheich C, Sievert V, Büssow K, Niesen F, Weihofen W, Loll B, Saenger W & Heinemann U (2003). Crystal structure of Homo sapiens protein hp14.5. Proteins: Structure, Function, and Genetics (in press) Weiner H, Faupel T & Büssow K (2003). Protein arrays from cDNA expression libraries. In: Protein Arrays, vol. Humana Press Inc. (in press) Holz C, Prinz B, Bolotina N, Sievert V, Büssow K, Simon B, Stahl U & Lang C (2003). Establishing the yeast Saccharomyces cerevisiae as a system for expression of human proteins on a proteome-scale. J Funct & Struct Genomics (in press) Heinemann U, Büssow K, Mueller U & Umbach P (2003). Facilities and methods for the high-throughput crystal structure analysis of human proteins. Acc Chem Res 36:157-163 Scheich C, Sievert V & Büssow K (2003). An automated method for high-throughput protein purification applied to a comparison of His-tag and GST-tag affinity chromatography. BMC Biotechnology 3:12 Eickhoff H, Konthur Z, Lueking A, Lehrach H, Walter G, Nordhoff E, Nyarsik L & Büssow K (2002). Protein array technology: the tool to bridge genomics and proteomics. Adv Biochem Engineer/Biotech 77:103-12 Walter G, Büssow K, Lueking A & Glokler J (2002). High-throughput protein arrays: prospects for molecular diagnostics. Trends in Mol Med 8:250-3 Büssow K, Hoffmann S & Sievert V (2002). ORFer - retrieval of protein sequences and open reading frames from GenBank and storage into relational databases or text files. BMC Bioinformatics 3:40 Klose J, Nock C, Herrmann M, Stuhler K, Marcus K, Bluggel M, Krause E, Schalkwyk LC, Rastan S, Brown SD, Büssow K, Himmelbauer H & Lehrach H (2002). Genetic analysis of the mouse brain proteome. Nature Genetics 30:385-93 Büssow K, Konthur Z, Lueking A, Lehrach H & Walter G (2001). Protein array technology. Potential use in medical diagnostics. Am J Pharmacogenomics 1:37-43 Büssow K, Nordhoff E, Lübbert C, Lehrach H & Walter G (2000). A human cDNA library for high-throughput protein expression screening. Genomics 65:1-8 Walter G, Büssow K, Cahill D, Lueking A & Lehrach H (2000). Protein arrays for gene expression and molecular interaction screening. Curr Opinion Microbiol 3:298-302 Holt LJ, Büssow K, Walter G & Tomlinson IM (2000). By-passing selection: direct screening for antibody-antigen interactions using protein arrays. NAR 28:E72 Egelhofer V, Büssow K, Luebbert C, Lehrach H & Nordhoff E (2000). Improvements in Protein Identification by MALDI-TOF-MS Peptide Mapping. Anal Chem 72:2741-2750 Lueking A, Horn M, Eickhoff H, Büssow K, Lehrach H & Walter G (1999). Protein microarrays for gene expression and antibody screening. Anal Biochem 270:103-111 Büssow K, Cahill D, Nietfeld W, Bancroft D, Scherzinger E, Lehrach H & Walter G (1998). A method for global protein expression and antibody screening on high-density filters of an arrayed cDNA library. NAR 26:5007-5008 External funding BMBF Leitprojekt Proteinstrukturfabrik Nationales Genomforschungsnetz NGFN, Kernbreich, Plattform 4
Mass Spectrometry Group Head: Dr. Johan Gobom Phone: +49 (0)30-8413 1542 Fax: +49 (0)30-8413 1380 Email: gobom@molgen.mpg.de Scientists: Niklas Gustavsson, PhD. Klaus-Dieter Klöppel, PhD Thomas Kreitler Ekaterina Mirgorodskaya, PhD Dieter Weichart, PhD Graduate students: Eryk Witold Wolski Students: Stefan Giesen Technicians: Corina Bräuer Beata Lukaczewska Dorothea Theiss Scientific overview The current work of the group focuses on the development and use of mass spectrometry and associated techniques for the study of native and recombinant proteins. Emphasis is placed on the development of new technology, including hardware, experimental protocols and data interpretation routines with application to mass spectrometry-based proteome analyses. Techniques established in the group are being applied in proteomic projects for the generation of biologically and clinically valuable information. The group is partially funded by the NGFN (National Genome Research Network). Since the current group leader, Johan Gobom, started his work in the mass spectrometry group in year 2000, the research within the group and with external collaborations has resulted in 14 scientific publications in peer-reviewed periodicals and books. Projects - Current state of the research (a) Development of technology for high-throughput protein identification The efforts of the group address key analytical problems, specifically in the interface of 2-dimensional gel electrophoresis (2-DE) and mass spectrometry, and generally for mass spectrometric analysis of proteins and peptides derived from biological samples. A task recently accomplished is the establishment of technology for high-throughput identification of proteins separated by 2-dimensional gel electrophoresis (2-DE) by matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry. This included the development of a gel excision workstation and a workflow for efficient, parallel processing of protein gel samples (Nordhoff et al. 2001). It is currently implemented on a commercial robotic platform in collaboration with the company Tecan (Switzerland). The resulting production of large mass spectrometric datasets spurred the development of improved and automated data analysis routines. A new strategy for protein identification by peptide mass fingerprinting was also developed that permits confident identification of proteins with mass spectra that lack internal calibrant signals (Egelhofer et al. 2000). This identification strategy was improved and implemented in a protein identification search engine, MSA (Egelhofer et al. 2002). A new concept for linking proteomic and genomic information by clustering mass spectrometric fingerprints generated from native proteins and recombinant expression products was also introduced (Schmidt et al. 2002). This technology and work-flow MPI for Molecular Genetics Research Report 2003 15
Page 1 and 2: Max-Planck-Institut für molekulare
Page 3 and 4: Table of Contents The Max Planck In
Page 5 and 6: MPI for Molecular Genetics Research
Page 7 and 8: The Max Planck Institute for Molecu
Page 9 and 10: Department of Vertebrate Genomics I
Page 11 and 12: To generate high resolution express
Page 13 and 14: Competitive position Since a long t
Page 15: the Protein Structure Factory. Fina
Page 19 and 20: different tissues of A. thaliana, w
Page 21 and 22: Bioinformatics Group Heads: Ralf He
Page 23 and 24: a) Evolutionary studies In a recent
Page 25 and 26: Fuchs T, Malecova B, Linhart C, Sha
Page 27 and 28: Mouse, Medaka & MHC Group Head: Dr.
Page 29 and 30: General information Publications 19
Page 31 and 32: Jochen Wittbrodt, EMBL, Heidelberg
Page 35 and 36: THETA - Two Hybrid Transfected-cell
Page 37 and 38: Academical co-operations Andreas Ra
Page 39 and 40: The investigation of signaling path
Page 41 and 42: In vitro Ligand Screening Group Hea
Page 45 and 46: Neurodegenerative Disorders Group H
Page 47 and 48: Automation Group Graduate students:
Page 49 and 50: In addition, novel methods for the
Page 51 and 52: Sittler A, Walter S, Wedemeyer N, H
Page 53 and 54: Prof. Dr. Joachim Klose, Institut f
Page 55 and 56: eral years. This ambiguity is partl
Page 57 and 58: Clark MD, Panopoulou GD, Cahill DJ,
Page 59 and 60: integrations were passaged to the g
Page 63 and 64: Protein Group Scientists: Sabine Ba
Page 65 and 66: Kersten B, Bürkle L, Kuhn EJ, Giav
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Cardiovascular Genetics Group Head:
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protein interaction partners and at
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General information Publications 19
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Chromosome 21 Group Head: Marie-Lau
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Department of Human Molecular Genet
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Network (NGFN). Recently, DNA from
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Finally, several of these groups ar
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Neurochemistry Group & Mouse Lab Gr
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studies. Furthermore, these mice wi
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Noonan syndrome and related disorde
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Chromosome Rearrangements & Disease
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General information Selected Public
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DNA Microarrays Scientists: Dr. Fik
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General information Publications He
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that in addition to reduced prolife
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Christoph Redies, Prof. Dr., Instit
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Since my move to the MPIMG in 11/20
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Biochemistry of Inherited Brain Dis
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Schweiger S, Chaoui R, Tennstedt C,
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Until 2002, 13 genes have been impl
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General information Selected public
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Department of Computational Molecul
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EU: The European Molecular Biology
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EST tissue distribution Besides the
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Protein Families & Evolution Group
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We make use of the well-known HMMer
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Theses Benjamin Georgi: A graph-bas
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wide analysis of tyrosine as well a
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Further projects include multiple t
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Co-operations Identification and fu
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upstream of the translational start
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Department of Developmental Genetic
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2000; see figure 1). So far, we hav
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partners are. We also want to find
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Emeritus Group General Molecular Ge
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Sethmann S, Ceglowski P, Willert J,
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Research Group Development & Diseas
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MPI for Molecular Genetics Research
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Goals An important future goal is t
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Independent Junior Research Groups
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over, daf-9 is tightly regulated by
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European C.elegans Meeting, Blanken
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and at the ribosomal DNA locus. One
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lencer, has so far remained unchara
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Molecular control of skeletal devel
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BMPs, into a common control network
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this end I plan to analyze mouse mu
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Ribosome Group The Ribosome group c
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General information Selected Public
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group during the same period. In ad
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11) Agmon I, Auerbach T, Baram D, B
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Reconstitution & function The ribos
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Wendrich TM, Blaha G, Wilson DN, Ma
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Miscellaneous Research Groups There
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vealed that the extraordinary stabi
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34. Thorsted PB, Macartney DP, Akht
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esis and DNA packaging of this phag
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Other launched projects concern con
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BMBF 01GR0105, Plattform 1.1: NGFN
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DNA synthesis, lipid biosynthesis,
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Administration & Research Support H
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Technical Management and Workshops
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tion based on the simplified GOOD a
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Library Librarians: Dipl.-Fachinf.
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How to get to the Institute Max Pla
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Research Report 2003 - Max-Planck-Institut für molekulare Genetik

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