Gene Expression and Enrichment Vector Analyzer
This tool is a web-based resource for analyzing collections of themed gene expression signatures. GEN3VA performs bulk enrichment analyses to produce an interactive web-based report with a variety of visualizations. For example, we used GEN3VA to automatically create a report of 49 gene expression signatures collected from studies that compared normal tissues to tissues from patients or mouse models of amyotrophic lateral sclerosis (ALS). This report provides a tabular view of all 49 gene expression signatures with their associated metadata; principal component analysis; hierarchical clustering; and enrichment analyses.
For the enrichment analyses component of the report, GEN3VA submits every gene signature from the collection to Enrichr and L1000CDS2. Enrichr performs enrichment analysis against many gene set libraries that include pathway databases, gene ontology, and regulation of gene sets by transcription factors. L1000CDS2 queries the gene signatures against the LINCS L1000 dataset to identify small molecules that can reverse or mimic the input expression signatures. Users can visualize the results from these analyses in interactive heatmaps that can potentially facilitate the discovery of unique and common regulatory mechanisms as well as potential small molecules that can be further experimentally tested.
GEN3VA: aggregation and analysis of gene expression signatures from related studies