PDF file: EURASNET Annual Report 2008

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Major cost items• ResearchPersonnel Euro 66,043.25WP2811111415171820namepersonmonthspersonhourscost (Euro)Glauco Tocchini-ValentiniAssociated ResearchDirector 4 540 0.00Sabrina PuttiResearcher 3 405 12,290.52Giancarlo DeiddaResearcher 1 135 3,978.92Giuseppe Di FrancoSenior Technician 3 405 10,181.40Chiara Di PietroResearcher 2 270 7,443.10Giuseppe Di FrancoSenior Technician 4 540 13,575.20Chiara Di PietroResearcher 1 135 3,721.55Serena GastaldiResearcher 2 270 7,426.28Serena GastaldiResearcher 2 270 7,426.28Travel Euro 1,960.57G.Tocchini Valentini’s participation in the Berlin Meeting, 20-23/01/2008Overhead/indirect costs Euro 52,504.3879.50% of total Personnel costs, calculated according to FC-Simplified Accounting Method,as defined by CNR HQ accounting rules and approved by the EU Commission153
Participant 11 – Albrecht Bindereifa) Work performed during the period• WP2Added our splicing constructs to list of reagents.• WP8Completion of detailed mutational analysis of several new in vivo targets of hnRNPL, human TJP1, SLC2A2, and ITGA1, that came out of our exonarray analysis(Monika Heiner and Albrecht Bindereif, manuscript in preparation). In addition, thehnRNP L pre-mRNA itself was characterized as an unusual target of the hnRNP Lprotein, creating an autoregulatory mechanism [Rossbach, Hung, Schreiner, Grishina,Heiner, Hui, and Bindereif (2008). Auto- and crossregulation of the hnRNP Lproteins by alternative splicing. Mol.Cell.Biol., in press].• WP12Continuation of characterization of human factor p110 and its role in U4/U6 snRNPrecycling. Shown in vitro that these proteins bind synergistically to U6 snRNA andthat both purified and recombinant LSm2-8 proteins recruit p110 protein to U6snRNA via interaction with the highly conserved C-terminal region of p110 [Licht,Medenbach, Lührmann, Kambach, and Bindereif (2008). 3’ Cyclic Phosphorylationof U6 snRNA Leads to Recruitment of RecyclingFactor p110 through LSm Proteins. RNA 14, 1532-1538].In addition, a new collaboration developed with the Israeli group of Eli Sprecher, adermatologist working on various rare diseases. Specifically, we have contributed tocharacterize the molecular consequences of the ANE syndrome, which is based on amutation in the human RBM28 gene [coauthorship: Nousbeck, Spiegel, Ishida-Yamamoto, Indelman, Shani-Adir, Adir, Lipkin, Bercovici, Geiger, van Steensel,Steijlen, Bergman, Bindereif, Choder, Shalev, and Sprecher (2008). Alopecia,neurological defects, and endocrinopathy syndrome caused by decreased expressionof RBM28, a nucleolar protein associated with ribosome biogenesis. Am. J. Hum.Genet. 82, 1114-1121]. We are continuing to analyze how the deficiency of theRBM28 protein affects the splicing machinery.• WP19Visits of four high-school pupils in our lab, each of them for 2 weeks in 2008, to getintroduced into biochemical and splicing research.Hold two seminars on general introduction into splicing research for associations ofGraduate students at Giessen University.b) Major cost items with justificationParticipant 11 Type of expenditure Budget total costspersonnel 33,054.83consumablestrainingequipmenttravel= total direct costs 33,054.83+ overhead 6,610.97= total eligible costs 39,665.80Major cost items• ResearchPersonnelInna Grishina [WP 8, 19] 1,360 hours 20,150.- EuroSilke Schreiner [WP 8, 19] 300 hours 7, 450.- EuroMonika Heiner [WP 8, 19] 300 hours 5,450.- Euro154
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TABLE OF CONTENTSA. PERIODIC ACTIVI
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1 PUBLISHABLE EXECUTIVE SUMMARY EUR
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Dr. Davide Gabellini(28) Swiss Inst
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WP7 Molecular characterization of s
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To identify protein-protein interac
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expressed in a particular tissue. T
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Duchenne muscular dystrophy (DMD).
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WP21 Reachout to the broader RNA co
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4.1 TABLE OF MILESTONES JPA MONTH 2
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Numerous plasmids, constructs, extr
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collaboration between EURASNET and
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5.1 WORK PACKAGE REPORTSWork Packag
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• Ongoing regular addition of new
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Work Package 4 The Alternative Spli
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Work Package 6 In silico approaches
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alternative splicing.162 Compare sp
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33 Agreement on pre-mRNA substrates
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its numerous binding sites on both
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Work Package 8 Genome-wide Analyses
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173 Further development of data ana
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Problems and explanations for delay
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eveal that there is a dramatic chan
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Work Package 10 Post-translational
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mutational analysis that led to the
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Isolation of an active step I splic
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FBP11 and 21 with these sequences.
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Similarly to what observed for SF2/
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prp45-113 mutant, which is compatib
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cell lines. In contrast in the pres
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genes with roles in the development
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Structural analyses of several RRMs
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Work Package 17 Staff Exchange and
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Barralle's lab, Krämer is acting a
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alternative splicing) and higher ed
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Student Symposium “Decision Makin
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variation and suitability for use w
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Following feedback from members we
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Invited seminars: In addition to me
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Publications 2008Author Title Publi
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Author Title Publication EURASNET P
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Minutes of the General Assembly dec
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241 Evaluate available careerdevelo
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156 The EURASNET memberStamm publis
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y coarse-grained foldingsimulation.
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overexpressor and mutant lines(mont
Page 104 and 105: machinery with particularrespect to
Page 106 and 107: alternative splicing, using theEDI
Page 108 and 109: contemporary findings withinthe EUR
Page 110 and 111: Author Title Publication EURASNET P
Page 118 and 119: Licht K, Medenbach J, Lührmann R,K
Page 122 and 123: 9 TABULAR OVERVIEW OF MAJOR COST IT
Page 124 and 125: total costs * 18.891,12 52778.60 41
Page 126 and 127: other (the rest) 48,57 0 56.539,43t
Page 128 and 129: travel 6.964,91overhead 3.081,07oth
Page 130 and 131: Participant 1A Type of expenditure
Page 132 and 133: Participant 1B - Karla Neugebauera)
Page 134 and 135: Participant 2 - Juan Valcarcela) Wo
Page 136 and 137: Participant 3 - Stefan Stamma) Work
Page 138 and 139: Participant 4 - Göran Akusjärvia)
Page 140 and 141: Participant 5A/B - Peer Bork/Rolf A
Page 142 and 143: Major cost items• ResearchPersonn
Page 144 and 145: Participant 7 - Francisco Barallea)
Page 146 and 147: Francisco Baralle gave a talk to a
Page 148 and 149: alternative splicing on human disea
Page 150 and 151: J. Beggs has had frequent contact w
Page 156 and 157: Participant 12A - Jamal Tazia) Work
Page 158 and 159: Participant 12B - Bertrand Séraphi
Page 160 and 161: Participant 12C - Christiane Branla
Page 162 and 163: Participant 12D - Edouard Bertranda
Page 164 and 165: Participant 13 - Daniel Schümperli
Page 166 and 167: Participant 14 - John W. S. Browna)
Page 168 and 169: Participant 15 - Javier F. Cáceres
Page 170 and 171: • ResearchPersonnelName WP Person
Page 172 and 173: MiscellaneousOligonucleotidesUse of
Page 174 and 175: Major cost items• ResearchConsuma
Page 178 and 179: Participant 21 - Angela Krämera) W
Page 180 and 181: Participant 22 - Angus Lamonda) Wor
Page 182 and 183: Participant 23 - Chris Smitha) Work
Page 184 and 185: ChemicalsEnzymesLaboratory supplies
Page 186 and 187: Participant 26 - Didier Auboeufa) W
Page 188 and 189: tool for the molecular analysis of
Page 190 and 191: Participant 29 - Frédéric Allaina
Page 192 and 193: protein and instead possesses the d
Page 194 and 195: + overhead 4.730= total eligible co
Page 196 and 197: Claudia Tamaro (PhD) has begun work
Page 198 and 199: ETHZIIMCBUPFSOTON-HGDTOTALJoint Pro
Page 200 and 201: Direct eligible costs 53.240,48 0,0
Page 202 and 203: Direct eligible costs 18.720,07 0,0
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13 REPORT ON THE DISTRIBUTION OF TH
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Report on the Distribution of the C
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For most work packages here follows
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pathways (eg, Reactome ).While PAND
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The possible dependence of the effe
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In some treatments or mutants, simi
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Work Package 12: Mis-splicing and D
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acid. Furthermore, using antibodies
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At the 2007 annual meeting in Ile d
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Partner 13 has extensively studied
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inhibitors/modulators of RNA splici
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18 MONTH JPA: WORKPACKAGE TIMECOURS
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15.3 GRAPHICAL PRESENTATION OF WORK
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15.4 TABLE OF MILESTONES (MONTH 37-
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156 The EURASNET memberStamm publis
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194 Bertrand will analyze indetail
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216 Aubeouf and Neugebauer willcoll
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238 Establishing joint PhDcommittee
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283 A unified browser for allknown
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296 Group 12a (Branlant) willuse th
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315 Lamond will use a FLIM-FRET bas
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329 GROUP 7 (F. BARALLE)will contin
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333 GROUP 27 (GABELLINI)will:1) foc
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345 Schümperli’s group isplannin
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366 Quarterly network e-mail atmont
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2. Sharing Resources, Technology an
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5. Ensuring DurabilityWorkpackage d
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7. Molecular Characterization of Sp
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8. Genome-wide Analyses of Splicing
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9. Complexity of Spliceosomal Prote
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202 Srebrow will investigate the ro
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12. Mis-splicing and DiseaseWorkpac
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13. Co-transcriptional Mechanisms o
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14. Chemical Biology and Therapeuti
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15. Development of Enabling Technol
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269 IFMs in 20091. “Alternative a
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18. Career DevelopmentWorkpackage d
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20. SMEs and Technology TransferWor
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21. Reachout to the Broader RNA Com
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15.7 WORK PACKAGE LIST (MONTHS 37-5
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ETHZIIMCBUPFSOTON-HGDTOTALJoint Pro
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AMU 5 29 8 42UAAR 5 145 16 1665 29
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Joint Programme of Activities RESEA
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60 month period 18 month periodRequ
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Integration1. Young Investigator Pr
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UCAM-DBIOC 2350,000x1/3 € 50,000x
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the management team. Audit costs ar
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