Upper bound of TF [Transcription Factor] coding genes in the human genome

Range 1,700 to 1,900 (1,391 manually curated sequence-specific DNA-binding transcription factors) Transcription factor genes
Organism Human Homo sapiens
Reference Vaquerizas JM, Kummerfeld SK, Teichmann SA, Luscombe NM. A census of human transcription factors: function, expression and evolution. Nat Rev Genet. 2009 Apr10(4):252-63. doi: 10.1038/nrg2538. Abstract & p.253 right column 2nd paragraphPubMed ID19274049
Method P.253 left column 4th paragraph:"To identify the repertoire of TFs in the human genome [researchers] define a class of proteins that binds DNA in a sequence-specific manner, but are not enzymatic or do not form part of the core initiation complex. First [they] assembled a list of DNA-binding domains and families from the InterPro database (release 17). For each entry [they] examined the description and associated literature to assess their sequence-specific DNA-binding capabilities, which resulted in an accurate list of 347 domains and families (Supplementary information S1 (PDF), S2 (.txt file)). [They] then extracted 4,610 proteins from the International Protein Index (IPI) database [ref 31] that show a significant match with these selected DNA-binding domains. This group of proteins mapped to 1,960 human genomic loci in the ensembl Genome Browser database (release 51) [ref 32]."
Comments Abstract:"Here, [researchers] present an analysis of 1,391 manually curated sequence-specific DNA-binding transcription factors, their functions, genomic organization and evolutionary conservation." P.253 right column 2nd paragraph:"Estimates of the coverage of [researchers'] approach range from 85% to 94% (Supplementary information S1 (PDF)) suggesting an upper bound of ~1,700–1,900 TF coding genes in the human genome." See BNID 109206
Entered by Uri M
ID 109201