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Andrew Su
ISMB/ECCB Stockholm 2009: Andrew Su
Special Session 5: Next Steps in eQTL Analysis: Gaining Insight at the Systems Level
July 1 - Comment - Share
Speakers: Ritsert Jansen, Andrew Su, Andreas Beyer, Rob Williams - Andrew Su
Ritsert Jansen - find xQTLs (eQTLs, pQTLs, mQTL, phQTL) - links both to genetic and epigenetic variation - Leopold Parts
e - expression; p - protein; m - metabolite; ph - phenotype - Leopold Parts
Keurentjes PNAS 2006 - prioritize potential regulators by the number of genes they are associated to - Leopold Parts
Fu (Nature Prot 2007) - find mQTLs and recover glusinolate pathway - Leopold Parts
[ coverage of Ritsert Jansen's talk is here, http://friendfeed.com/biocs... -- not in ISMB room by accident ] - Michael Kuhn
Jansen (Curr Opinion Plant Bio 2009) - integrate xQTLs; summary of results for integrating the 4 levels of association. Not all associations are shared across the levels, but some are. - Leopold Parts
Would like to infer causes, not just associations. - Leopold Parts
Can compare causal vs. pleiotropic models. - Leopold Parts
Problems - observed noise not biological; few causal associations compared to pleiotropic ones - Leopold Parts
Need large sample sizes to reliably infer causal relations. 30% variance explained by QTL for both traits required for 200 individuals. - Leopold Parts
Boerjan (Nat Genet 2009) - hotspots; few loci in genome with high number of associations for levels from transcripts to phenotype - Leopold Parts
Johannes (Nat Rev Gen 2008, PLOS Genetics 2009) - chromatin state uncorrelated to DNA sequence correlated to traits? Large part of heritable variability explained by epigenetic variants. - Leopold Parts
@Michael - thanks; any chance to move these? Anyway, next ones will be in more appropriate place :) - Leopold Parts
@Leopold: Unfortunately not, I wish this was easier. I'll make a post for the next talk and link it here (this time in the ISMB room!) - Michael Kuhn