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]
^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.
^ abHarrow 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.
^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.
^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.
^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.
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...
device. In the 1970s, Tunnicliffe led the development of a standard called GenCode for the publishing industry and later was the first chairman of the International...
Hubbard, TJ; Notredame, C; Harrow, J; Guigó, R (September 2012). "The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure...
1186/s13073-017-0441-1. PMC 5448149. PMID 28558813. Harrow, J.; et al. (September 2012). "GENCODE: the reference human genome annotation for The ENCODE Project". Genome...
code re-use easy. Gencode Scripts: The gencode-remote script is the main way to actually update the configuration of target nodes. gencode-remote runs on...
au/show/unit/YYYYMMDD/YYYYMMDD/?k1=GENCODE[permanent dead link] where YYYYMMDD are start and end dates and GENCODE is one of BW01, BW02, BW03, or BW04...
effort to describe different cancer tumour types. It is also part of the GENCODE and ENCODE research programmes to create an encyclopaedia of DNA elements...
genes however that estimate has fallen to about 19,000 with the ongoing GENCODE annotation project. The number of noncoding genes is not known with certainty...
comprehensive map of conserved elements in the human genome, the ENCODE, GENCODE, and modENCODE projects to characterize the genes, non-coding elements...
pre-selected sets of genes to look for correlations between known sets of genes. GENCODE v24, Geneid Genes, Pfam in UCSC Gene Phenotype and Literature Databases...
Sisu C, Frankish A, Howald C, Habegger L, Mu XJ, et al. (2012). "The GENCODE pseudogene resource". Genome Biology. 13 (9): R51. doi:10.1186/gb-2012-13-9-r51...
PMC 8534260. PMID 34680261. "Human Gene DIRAS1 (ENST00000323469.5) from GENCODE V44". "Di-Ras, a Distinct Subgroup of Ras Family GTPases with Unique Biochemical...
Fight for Ratios and Editions]. Bertelsmann. 2001. ISBN 978-3570001998. Gencode J: Roman [Gene Code J.]. Eichborn. 2001. ISBN 978-3821808604. Marktplatz...
the differences in transcripts annotation between RefSeq and Ensembl/GENCODE annotation systems are reduced. A MANE Select transcripts set are created...
regions and the distance and orientation preferences between motif sites. GENCODE SIMAP Functional genomics Human Genome Project 1000 Genomes Project International...
Center) EcoCyc Ensembl Europe PMC European Nucleotide Archive (ENA) FlyBase GENCODE Gene Ontology (GO) Global Biodiversity Information Facility (GBIF) Genome...
section of CCDS sequence data. The CCDS dataset is an integral part of the GENCODE gene annotation project and it is used as a standard for high-quality coding...
transcript annotations from different databases (Mirbase, GtRNAdb and Gencode). Small RNA sequencing can be useful for: studying the expression profile...
protein is generated from Chromosome 1: 176,861,067-177,164,712 and the Gencode Gene: ENSG00000152092.16 with a base pair size of 303,646 and total Exon...
of the data sources for each annotation type: UCSC/Ensembl genes hg38 GENCODE/CCDS ENCODE Custom-made databases conforming to GFF3 (Generic Feature Format...
played significant roles in large-scale consortium sequencing projects like GENCODE, the Vertebrate Genome Project, Pan-Cancer Initiative, Human Cell Atlas...
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