Enter (The Database for Annotation, Visualization and Integrated Discovery). For nearly two decades, DAVID has been the Swiss Army knife of functional annotation. It answers the golden question of genomics: "Which biological processes are my genes involved in?"
"I have 4 genes." With DAVID: You run the list. The top cluster is "Amyloid precursor protein metabolic process" (Fold Enrichment: 45x). The second cluster is "Axon guidance" (Not significant? Maybe ignore). The third cluster is "Immune response" (Wait, microglia genes are also upregulated? That changes your hypothesis). david functional annotation
DAVID doesn't just count genes. It uses a modified Fisher Exact p-value (EASE score). Look for terms with a p-value < 0.05 after Benjamini correction (FDR). The lower the p-value, the stronger the signal. The top cluster is "Amyloid precursor protein metabolic
Go to [david.ncifcrf.gov] and turn your data into discovery. Have a favorite alternative (Enrichr, g:Profiler, Metascape)? Drop a comment below. But for my money, DAVID is still the gold standard for functional annotation. The third cluster is "Immune response" (Wait, microglia