Functional cohesion of gene sets determined by latent semantic indexing of PubMed abstracts.

ABSTRACT:

Unlabelled

High-throughput genomic technologies enable researchers to identify genes that are co-regulated with respect to specific experimental conditions. Numerous statistical approaches have been developed to identify differentially expressed genes. Because each approach can produce distinct gene sets, it is difficult for biologists to determine which statistical approach yields biologically relevant gene sets and is appropriate for their study. To address this issue, we implemented Latent Semantic Indexing (LSI) to determine the functional coherence of gene sets. An LSI model was built using over 1 million Medline abstracts for over 20,000 mouse and human genes annotated in Entrez Gene. The gene-to-gene LSI-derived similarities were used to calculate a literature cohesion p-val

SUBMITTER: Xu L 

PROVIDER: S-EPMC3077411 | biostudies-literature | 2011 Apr

REPOSITORIES: biostudies-literature