Recipe: Identify an up- or down-regulated pathway from expression data
4 videos • 898 views • by GenomeSpace This recipe provides an outline of one method to identify known biological functions for genes that are differentially expressed between two conditions or phenotypes, using microarray data. Given a set of differentially expressed genes, the goal is to infer which biological functions (for example, Gene Ontology biological processes) are overrepresented in the set of reference genes found to be differentially expressed. In particular, this Recipe uses a gene expression dataset which has two conditions: normal and mild hyperthermia, then uses GenePattern to identify differentially expressed genes, and finally uses MSigDB to identify biological functions and pathways that are enriched in the gene set.