Many coding genes are well annotated with their biological functions. Non-coding regions typically lack such annotation. GREAT, the Genomic Regions Enrichment of Annotations Tool, assigns biological meaning to a set of non-coding genomic regions by analyzing the annotations of the nearby genes. Thus, it is useful in studying cis functions of non-coding genomic regions.
- Overview - When is GREAT useful, and for which uses should I prefer it to other annotation tools?
- Genome Assemblies - Which genome assemblies does GREAT support, and can I use other assemblies or species?
- File Formats - What should my test regions and background regions files contain?
- Background Sets - Why should I use a background set in evaluating enrichments?
- Statistics - How does GREAT calculate enrichments, and how should I interpret my results?
- Output - What output does GREAT provide?
- Genes - Which set of genes does GREAT use, and how does GREAT determine a single transcription start site for a gene?
- Ontologies - What is an ontology and which ontologies does GREAT provide?