This data is prepared based on the molecular signatures database (Msigdb; http://www.broadinstitute.org/gsea/msigdb/index.jsp). An R object that contains associations between Msigdb H hallmark gene sets and Human Entrez Genes. This collection is the starting point for the exploration of the MSigDB resource. Hallmark gene sets summarize and represent specific well-defined biological states or processes and display coherent expression. These gene sets were generated by a computational methodology based on identifying gene set overlaps and retaining genes that display coordinate expression. The hallmarks reduce noise and redundancy and provide a better delineated biological space.
org.Hs.egMsigdbH <- dRDataLoader(RData.customised = "org.Hs.egMsigdbH")
an object of class "GS", a list with following components:
set_info: a matrix of nSet X 4 containing gene set information, where nSet is the number of gene sets, and the 4 columns are "setID" (i.e. "Geneset standard name"), "name" (i.e. "Geneset brief description"), "namespace" (i.e. Geneset category code) and "distance" (i.e. "Geneset full description")
gs: a list of gene sets, each storing gene members thereof. Always, gene sets are identified by "setID" and gene members identified by "Entrez ID"
Subramanian et al. (2005) Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A., 102(43):15545-50.
org.Hs.egMsigdbH <- dRDataLoader(RData.customised='org.Hs.egMsigdbH')Error in dRDataLoader(RData.customised = "org.Hs.egMsigdbH"): unused argument (RData.customised = "org.Hs.egMsigdbH")names(org.Hs.egMsigdbH)Error in eval(expr, envir, enclos): object 'org.Hs.egMsigdbH' not found