ECCB'12 Satellite Symposium


Bioinformatics Research Infrastructure for the Life Sciences: The First 10 Years of UniProt


Saturday 8. September 2012, Basel, Switzerland


Congress Center Basel, Room "Montreal"


This symposium celebrates the 10th birthday of UniProt in 2012. In 2002, forty years after the first comprehensive collection of protein sequences, the “Atlas of Protein Sequence and Structure”, was published, the SWISS-PROT and TrEMBL protein sequence databases at the European Bioinformatics Institute (EBI) and the SIB Swiss Institute of Bioinformatics, and the Protein Information Resource (PIR) in Washington, joined forces to create UniProt.


UniProt is used widely by scientists from a variety of life science fields in academia and industry. In this symposium, renowned speakers will give insight into their work and highlight how protein databases are underpinning life sciences. The symposium aims at anyone with an interest in proteins and their functions, including proteomics researchers, data curators, and bioinformaticians.



7:30   Registration at conference center
9:00   Welcome
Ron Appel (SIB Swiss Institute of Bioinformatics)
9:05   Welcome and UniProt introduction
Rolf Apweiler
(European Bioinformatics Institute, Hinxton, UK)
    Session I: Interactions and protein modeling
(Chair: Ioannis Xenarios, SIB)
9:15   Modelling protein structures and complexes using evolutionary information
Torsten Schwede
(University of Basel, Switzerland)
9:45   Is the interface of 3D protein complexes a determinant in the pathogenesis of disease-related genes?
Franca Fraternali (King's College London, UK)
10:00   Deeply conserved gene modules and disease
Edward Marcotte (University of Texas, Austin, USA)
10:30   Coffee and Posters
    Session II: Proteomics
(Chair: Cathy Wu, PIR)
11:15   IMEx and ProteomeXchange - Coordinating Proteomics Data capture and dissemination
Henning Hermjakob (European Bioinformatics Institute, Hinxton, UK)
11:45   Exploring biodiversity of complex metaproteome samples using dynamic ring charts
Bart Mesuere (Ghent University, Belgium)
12:00   Exploring the Human Protein Atlas to study biology and disease (Invited talk)
Mathias Uhlen (Royal Institute of Technology, Stockholm, Sweden)
12:30   Lunch
    Session III: Protein structure and function
(Chair: Helen Berman, Rutgers University)

Structure, function and evolution of enzymes

Janet Thornton (European Bioinformatics Institute, Hinxton, UK)

14:30   The footprint of evolution on protein-protein interfaces through UniProt history
Jose Duarte (Paul Scherrer Institut, Villigen, Switzerland)
14:45   Dual aspect of metabolism revealed by KEGG orthology and reaction classification systems.
Minoru Kanehisa (Kyoto University, Japan)
15:15   Coffee & Posters
    Session IV: Genome analysis and annotation
(Chair: Judith Blake, MGI)
16:00   GO meets phylogenetics: a practical approach to large-scale annotation of gene function
Paul Thomas, University of Southern California, Los Angeles, USA
16:30   Keeping it clean – Finding spurious proteins with AntiFam
Alex Bateman (Wellcome Trust Sanger Institute, Hinxton, UK)
16:45   From Sequences to Science: what 20+ million sequences tells us about the protein universe
William Pearson (University of Virginia, Charlottesville, USA)
17:15   Wrap-up and Farewell
Rolf Apweiler (EBI)
17:30   End of meeting.


Coffee breaks and lunch are included in the registration fee. Please register [here] for the symposium. An early rate of CHF 125 applies for registration before 1 August 2012.

If you need a letter of invitation for visa or funding purposes, or have any other questions, please contact


The creation of UniProt was supported by the National Institutes of Health (NIH) grant 1U01HG02712 (now 1U41HG006104). Further support comes from the NIH (grants 2P41HG02273, 5R01GM080646, 3R01GM080646, 1G08LM010720, 3P20RR016472), the European Commission (grants 200754, 222886, 226073), the National Science Foundation (grant DBI-0850319), the European Molecular Biology Laboratory, the University of Geneva, and the Swiss Federal Government.