Sentences with phrase «gene set enrichment»

As revealed by gene set enrichment analysis, the MAPK pathway was inactivated in the combination treatment group compared with the untreated group.

We applied gene set enrichment analysis (GSEA)(23) to expression array data using KEGG (Kyoto Encyclopedia of Genes and Genomes) pathways.

A team led by Pablo Tamayo and Jill Mesirov of the Broad Institute and University of California, San Diego, and Broad bioinformatician Arthur Liberzon, has generated «hallmark» gene sets from the Molecular Signatures Database (MSigDB), one of the most comprehensive and widely used databases for gene set enrichment analysis.

Not exact matches

The enrichment score (ES) for a single set was then defined as the greatest positive deviation of the running sum across all genes.

Gene Set Enrichment Analysis (GSEA) is a microarray data - mining technique used to determine whether there is coordinated differential expression or «enrichment» in a set of functionally related genes when comparing control and experimental samples [3Set Enrichment Analysis (GSEA) is a microarray data - mining technique used to determine whether there is coordinated differential expression or «enrichment» in a set of functionally related genes when comparing control and experimental samples [3set of functionally related genes when comparing control and experimental samples [35].

Genes contributing to the enrichment for significant gene sets are presented in Supplementary Tables 1 and 2.

We thank D.L. Court (National Cancer Institute) for plasmid pSIM18 for the generation of BAC - transgenic mice; J.G. Cyster (UC San Francisco) for Hy10 mice; E. Hobeika and M. Reth (Max Planck Institute of Immunobiology and Epigenetics) for Mb1 - Cre mice; M. Nussenzweig (The Rockefeller University) for B1 - 8hi mice, anti-DEC205 — OVA and anti-DEC205 — CS; G.D. Victora (Whitehead Institute for Biomedical Research) for gene sets for the gene - set - enrichment analysis; O. Ohara, T. Watanabe and Y. Mochizuki for transcriptome analysis; W. Ise for discussions; M. Tochigi, C. Kawai, A. Arakawa and H. Masuda for technical assistance; P. Burrows for critical reading; and R. Brink for communicating unpublished results.

Fisher's exact test as implemented in R66 was run to test for enrichment or depletion of numbers of gene families for each molecular function category in the novel versus ancestral gene sets.