gene_sets_human: Human Gene Sets

In stephenslab/pathways: Gene Set Enrichment Analysis Using Human and Mouse Gene Sets

Description

37,856 gene sets compiled from the NCBI BioSystems, Pathway Commons and MSigDB databases.

Format

gene_sets_human is a list with the following list elements:

gene_info

Data frame containing information on human genes, including gene symbols, HGNC and Ensembl ids. This table was compiled from the Homo_sapiens.gene_info.gz file downloaded from the NCBI FTP site.

gene_set_info

Data frame containing information on the gene sets, including gene set name, id and database of origin. The columns "sub_category_code", "organism" and "description_brief" are only used for the MSigDB gene sets.

gene_sets

Gene sets encoded as a 61,676 x 37,856 sparse binary matrix, in which gene_sets[i,j] = 1 if and only if gene i is included in gene set j; otherwise, gene_sets[i,j] = 0. The row names are the gene Ensembl ids and the column names are the gene set ids.

stephenslab/pathways documentation built on March 17, 2021, 11:03 p.m.