FAVOR Essential Database (aGDS Format)

Functional Annotation of Variants - Online Resource (FAVOR, https://favor.genohub.org) is a comprehensive whole-genome variant annotation database and a variant browser, providing hundreds of functional annotation scores from a variety of aspects of variant biological function. This FAVOR Essential Database (aGDS Format) is comprised of a collection of essential annotation scores for all possible SNVs (8,812,917,339) and observed indels (79,997,898) in Build GRCh38/hg38, including variant info, chromosome, position, reference allele, alternative allele, aPC-Conservation, aPC-Epigenetics, aPC-Epigenetics-Active, aPC-Epigenetics-Repressed, aPC-Epigenetics-Transcription, aPC-Local-Nucleotide-Diversity, aPC-Mappability, aPC-Mutation-Density, aPC-Protein-Function, aPC-Proximity-To-TSSTES, aPC-Transcription-Factor, CAGE promoter, CAGE, MetaSVM, rsID, FATHMM-XF, Gencode Comprehensive Category, Gencode Comprehensive Info, Gencode Comprehensive Exonic Category, Gencode Comprehensive Exonic Info, GeneHancer, LINSIGHT, CADD, rDHS. These annotation scores are stored in annotated Genomic Data Structure (aGDS) file format (without genotype data) to support fast query and retrieval at variant-level. The aGDS file can then facilitate a wide range of functionally-informed downstream analyses.