GREAT v1.2 Ontologies
Gene Ontology (GO)
Phenotype Data and Human Disease
- Mouse Phenotype v1.2 - data about mouse genotype - phenotype associations primarily obtained by curators from the literature
- MSigDB Cancer Neighborhood v1.2 - gene sets defined by correlated expression profiles with cancer-associated genes
- MSigDB Cancer Modules v1.2 - gene sets with an altered expression in a variety of cancer conditions
Pathway Data
- PANTHER Pathway v1.2 - primarily signaling pathways
- Pathway Commons v1.2 - a collection of pathways from multiple sources
- BioCyc Pathway v1.2 - metabolic pathways
- MSigDB Pathway v1.2 - gene sets from pathway databases
Gene Expression
- MGI Expression Detected v1.2 - genes detected as expressed in data with a focus on gene expression during mouse development
- MSigDB Perturbation v1.2 - gene sets that change their expression after genetic and chemical perturbations
Regulatory Motifs
- Transcription Factor Targets v1.2 - genes identified by a transcription factor ChIP-chip experiment
- MSigDB Predicted Promoter Motifs v1.2 - gene sets that share a transcription factor binding motif
- MSigDB miRNA Motifs v1.2 - gene sets that share a 3'-UTR microRNA binding motif
- miRNA Targets v1.2 - genes that are downregulated in a microRNA overexpression experiment
Gene Families
- InterPro v1.2 - protein domains, families and functional sites
- TreeFam v1.2 - gene families of paralogs
- HGNC Gene Families v1.2 - gene sets based on sequence similarity, data from the literature, and manual curation