GENCODE

GENCODE
Content
DescriptionEncyclopædia of genes and gene variants
Data types
captured		All gene features in Human & mouse genome
Contact
Research centerWellcome Trust Sanger Institute
AuthorsHarrow J, et al [1]
Primary citationPMID 22955987
Release dateSeptember 2012 (September 2012)
Access
WebsiteWebsite Gencode
Tools
WebUCSC Genome Browser: http://genome.cse.ucsc.edu/encode/
Miscellaneous
LicenseOpen Access
Data release
frequency		Human - Quarterly
Mouse - Half yearly
VersionHuman - Release 37 (February 2021)
Mouse - Release M26 (February 2021)

GENCODE is a scientific project in genome research and part of the ENCODE (ENCyclopedia Of DNA Elements) scale-up project.

The GENCODE consortium was initially formed as part of the pilot phase of the ENCODE project to identify and map all protein-coding genes within the ENCODE regions (approx. 1% of Human genome).[2] Given the initial success of the project, GENCODE now aims to build an “Encyclopedia of genes and genes variants”.[2]

The result will be a set of annotations including all protein-coding loci with alternatively transcribed variants,[3] non-coding loci[4] with transcript evidence, and pseudogenes.[5]

  1. ^ Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, et al. (September 2012). "GENCODE: the reference human genome annotation for The ENCODE Project" (PDF). Genome Research. 22 (9): 1760–74. doi:10.1101/gr.135350.111. PMC 3431492. PMID 22955987.
  2. ^ a b Harrow J, Denoeud F, Frankish A, Reymond A, Chen CK, Chrast J, et al. (2006). "GENCODE: producing a reference annotation for ENCODE". Genome Biology. 7 (Suppl 1): S4.1–9. doi:10.1186/gb-2006-7-s1-s4. PMC 1810553. PMID 16925838.
  3. ^ Frankish A, Mudge JM, Thomas M, Harrow J (2012). "The importance of identifying alternative splicing in vertebrate genome annotation". Database. 2012: bas014. doi:10.1093/database/bas014. PMC 3308168. PMID 22434846.
  4. ^ Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, Tilgner H, et al. (September 2012). "The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression". Genome Research. 22 (9): 1775–89. doi:10.1101/gr.132159.111. PMC 3431493. PMID 22955988.
  5. ^ Pei B, Sisu C, Frankish A, Howald C, Habegger L, Mu XJ, et al. (September 2012). "The GENCODE pseudogene resource". Genome Biology. 13 (9): R51. doi:10.1186/gb-2012-13-9-r51. PMC 3491395. PMID 22951037.