Guan Lab

Department of Computational Medicine & Bioinformatics
Fri, 09/30/2016 - 09:20 -- gyuanfan
TitleCrowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis.
Publication TypeJournal Article
Year of Publication2016
AuthorsSieberts SK, Zhu F, García-García J, Stahl E, Pratap A, Pandey G, Pappas D, Aguilar D, Anton B, Bonet J et al.
Corporate AuthorsMembers of the Rheumatoid Arthritis Challenge Consortium
JournalNat Commun
Volume7
Pagination12460
Date Published2016
ISSN2041-1723
Abstract

Rheumatoid arthritis (RA) affects millions world-wide. While anti-TNF treatment is widely used to reduce disease progression, treatment fails in ∼one-third of patients. No biomarker currently exists that identifies non-responders before treatment. A rigorous community-based assessment of the utility of SNP data for predicting anti-TNF treatment efficacy in RA patients was performed in the context of a DREAM Challenge (http://www.synapse.org/RA_Challenge). An open challenge framework enabled the comparative evaluation of predictions developed by 73 research groups using the most comprehensive available data and covering a wide range of state-of-the-art modelling methodologies. Despite a significant genetic heritability estimate of treatment non-response trait (h(2)=0.18, P value=0.02), no significant genetic contribution to prediction accuracy is observed. Results formally confirm the expectations of the rheumatology community that SNP information does not significantly improve predictive performance relative to standard clinical traits, thereby justifying a refocusing of future efforts on collection of other data.

DOI10.1038/ncomms12460
Comment

http://www.ncbi.nlm.nih.gov/pubmed/27549343?dopt=Abstract

Alternate JournalNat Commun
PubMed ID27549343
PubMed Central IDPMC4996969