| No. | Title | Authors | Journal |
|---|---|---|---|
| 31 | Impact of outdated gene annotations on pathway enrichment analysis | Lina Wadi, Mona Meyer, et al. | Nature Methods. (2016) 13(): 705-706 |
Abstract
Pathway enrichment analysis is a common technique for interpreting gene lists derived from high-throughput experiments1.
Its success depends on the quality of gene annotations. We analyzed the evolution of pathway knowledge and annotations over
the past seven years and found that the use of outdated resources has strongly affected practical genomic analysis and recent literature:
67% of ~3,900 publications we surveyed in 2015 referenced outdated software that captured only 26% of biological processes and pathways identified using current resources. Pathway analysis assesses the statistical enrichment of biological processes and pathways in a given gene list on the basis of information in Gene Ontology2 (GO) and pathway databases such as Reactome3 and PathwayCommons. GO is updated daily and Reactome versions are released quarterly, but many software tools interpret gene lists using functional information that has not been updated for years....
/PMID: 27575621
/presenter : Sung gwon Lee
/date : 2016.09.22
Pathway enrichment analysis is a common technique for interpreting gene lists derived from high-throughput experiments1.
Its success depends on the quality of gene annotations. We analyzed the evolution of pathway knowledge and annotations over
the past seven years and found that the use of outdated resources has strongly affected practical genomic analysis and recent literature:
67% of ~3,900 publications we surveyed in 2015 referenced outdated software that captured only 26% of biological processes and pathways identified using current resources. Pathway analysis assesses the statistical enrichment of biological processes and pathways in a given gene list on the basis of information in Gene Ontology2 (GO) and pathway databases such as Reactome3 and PathwayCommons. GO is updated daily and Reactome versions are released quarterly, but many software tools interpret gene lists using functional information that has not been updated for years....
/PMID: 27575621
/presenter : Sung gwon Lee
/date : 2016.09.22