Henning Hermjakob - ProteomeBinders

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The HUPO Proteomics Standards Initiative• Develop data format standards• Data representation and annotationstandards• Involve data producers, databaseproviders, software producers, publishers• Open community initiativeHenning HermjakobProteomics Services TeamProteomeBindersAlpbach meeting, March 2007
HUPO PSI MI XML format• Community standard for Molecular Interactions• XML schema and detailed controlled vocabularies• Exchange format, not internal format• Jointly developed by major data providers:BIND, CellZome, DIP, GSK, HPRD, Hybrigenics, IntAct,MINT, MIPS, Serono, and others• Version 1.0 published in February 2004The HUPO PSI Molecular Interaction Format - A communitystandard for the representation of protein interaction data.Hermjakob et al, Nature Biotechnology 2004, 22, 176-183.• Version 2.5 (Released December 5, 2005)covers flexible molecule types, and parameters• http://psidev.sf.net/mi/rel25Henning HermjakobProteomics Services TeamProteomeBindersAlpbach meeting, March 2007
Page 1 and 2: Designing a Binder DatabaseProteome
Page 3 and 4: Initiatives for Proteome Binderdeve
Page 5: Data fragmentation• Difficult to
Page 9 and 10: PSI MI components• XML format•
Page 11 and 12: Working hypothesis:Binder-Target bi
Page 13 and 14: Data model development• Mapping r
Page 15 and 16: Next steps• Development of protot
Page 17: Acknowledgements• Sandrine Palcy,

Henning Hermjakob - ProteomeBinders

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