CAGI3 Conference
The conference to discuss the outcome of the 2012-13 CAGI experiment was held at the Max Planck Institute for Molecular Genetics in Berlin, Germany on 17-18 July 2013 (the two days preceding the ISMB 2013 SIGs).
As with the previous conferences, the aim of this CAGI Conference was to disseminate the results of the most recent CAGI experiment and assess our collective ability to make accurate and meaningful predictions of phenotypes from genomic information. CAGI assessors and selected predictors gave the majority of the talks at the conference, with significant time allocated for discussions.
Acknowledgements
We are most grateful to Professor Martin Vingron for agreeing to act as co-chair and to host the meeting at his home institute. Funding for this conference was made possible (in part) by R13 HG006650 from the National Human Genome Research Institute. The views expressed in written conference materials or publications and by speakers and moderators do not necessarily reflect the official policies of the Department of Health and Human Services; nor does mention by trade names, commercial practices, or organizations imply endorsement by the U.S. Government.
Logistics, Accommodation and Transportation
For detailed information see logistics, accommodation and transportation.
Conference Program
Slides from the CAGI conference: registered users only, limited by CAGI Data Use Agreement.
17 July 2013
9:00am: Registration and breakfast
10:00am: Welcome and Introduction to CAGI
Steven E. Brenner, University of California, Berkeley
John Moult, University of Maryland
10:20am-11:10am: Splicing session
Session chair: Steve Mount, University of Maryland
10:20am: Introduction from the session chair
Steve Mount, University of Maryland
10:25am: Data provider talk & Assessment
Jeremy Sanford, University of California, Santa Cruz
10:45am: Predictor talk
Adam Frankish, Wellcome Trust Sanger Institute
10:55am: Predictor talk
Sean Mooney, The Buck Institute
11:05am: Overall prediction comments and conclusions
11:10am: Coffee break
11:40am-1:00pm: p16 session
Session chair: Silvio Tosatto, University of Padua
11:40am: Data provider talk
Maria Chiara Scaini, Immunology and Molecular Oncology Unit, IOV
11:55am: Assessment
Silvio Tosatto, University of Padua
12:25pm: Predictor talk
Panagiotis Katsonis, Baylor College of Medicine
12:35pm: Predictor talk
Emidio Capriotti, University of Alabama, Birmingham
12:45pm: Overall prediction comments and conclusions
1:00pm: Lunch
2:00pm-3.00pm: MRN session
Session chair: Rachel Karchin, Johns Hopkins University
2:00pm: Introduction from the session chair
Rachel Karchin, Johns Hopkins University
2:05pm: Data provider and Assessment
Sean Tavtigian, University of Utah
2:30pm: Predictor talk
Ronald Dunbrack, Fox Chase Cancer Center
2:40pm: Overall prediction comments and conclusions
3:00pm-4:30pm: FCH & HA session
Session Chair: Tim Hubbard, Wellcome Trust Sanger Institute
3:00pm: Introduction from the session chair
Tim Hubbard, Wellcome Trust Sanger Institute
3:05pm: Data provider talk
Angel Mak, University of California, San Francisco
3:15pm: Assessor talk
Shamil Sunyaev, Harvard University
3:40pm: Predictor talk
Lipika Ray, University of Maryland
3:50pm: Predictor talk
Emanuela Leonardi, University of Padua
4:00pm: Predictor talk
Yanay Ofran, Bar-Ilan University
4:10pm: Predictor talk
Nathaniel Pearson, Ingenuity Systems
4:20pm: Overall prediction comments and conclusions
4:30pm-5:30pm: BRCA session
Session Chair: Roland Dunbrack, Fox Chase Cancer Center
4:30pm: Data provider talk (slides included in BRCA assessment slides)
Robert Nussbaum, University of California, San Franc
4:50pm: Assessor talk
Roland Dunbrack, Fox Chase Cancer Center
5:10pm: Overall prediction comments and conclusions
5:30pm: Coffee break
6:00pm: Outlook and prospects for informatics in cancer genomics
Discussion chair: Julian Gough, University of Bristol
6:30pm: Reception
8:00pm: Group dinner at Alter Krug
Königin-Luise-Straße 52
14195 Berlin, Germany
18 July 2013
9:00am: Breakfast
10:00am-1:20am: Crohn's Disease session
Session chair: Stephen Yee, University of California, Berkeley
10:00am: Introduction from the session chair
Stephen Yee, University of California, Berkeley
10:05am: Assessment
Alexander Morgan, Stanford University
10:35am: Predictor talk
Manuel Giollo, University of Padua
10:45am: Predictor talk
Predrag Radivojac, University of Indiana, Bloomington
10:55am: Predictor talk
Pietro Di Lena, University of Bologna
11:05am: Overall prediction comments and conclusion
11:20am: Coffee break
11:55am-12:45pm: riskSNPs session
Session chair: John Moult, University of Maryland
11:55am: Data provider talk & Assessment
John Moult, University of Maryland
12:15pm: Predictor talk (slides included in riskSNPs assessment slides)
Christopher Yates, Imperial College London
12:20pm: Predictor talk
Steve Mount, University of Maryland
12:30pm: Overall prediction comments and conclusions
12:45pm: Lunch
1:45pm: Keynote talk: The future of genomic medicine in the UK
Tim Hubbard, Wellcome Trust Sanger Institute
2:20pm: Structure vs. evolution for variant interpretation
Discussion chair: Yana Bromberg, Rutgers University
2:40pm: Poster session and refreshments
4:10pm-5:30pm: PGP session
Session chair: Sean Mooney, The Buck Institute
4:10pm: Data provider talk
Madeleine Price Ball, Harvard University & The Personal Genome Project
4:25pm: Assessment
Sean Mooney, The Buck Institute
4:50pm: Predictor talk
Rachel Karchin, Johns Hopkins University
5:00pm: Predictor talk
Mary Wahl, Harvard University
5:10pm: Overall prediction comments and conclusions
5:30pm: What did we learn?
Discussion chairs: Steven Brenner and John Moult
6:00pm: The future of CAGI and publication plans
Discussion chairs: Steven Brenner and John Moult