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TFCat specifications

Information


Unique identifier OMICS_06173
Name TFCat
Restrictions to use None
Maintained Yes

Taxon


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus

Publication for TFCat

TFCat citations

 (5)
library_books

SeagrassDB: An open source transcriptomics landscape for phylogenetically profiled seagrasses and aquatic plants

2018
Sci Rep
PMCID: 5807536
PMID: 29426939
DOI: 10.1038/s41598-017-18782-0

[…] ription factor databases available from http://planttfdb.cbi.pku.edu.cn and http://plntfdb.bio.uni-potsdam.de/v3.0/ were performed. In addition, transcription factors were also identified using plant TFcat. KEGG based representation of unigenes was done using KEGG Mapper and KEGG (www.genome.jp/kegg/). […]

library_books

A novel analysis strategy for integrating methylation and expression data reveals core pathways for thyroid cancer aetiology

2015
BMC Genomics
PMCID: 4682414
PMID: 26678064
DOI: 10.1186/1471-2164-16-S12-S7

[…] ays were of higher importance as they possess the potential of affecting many biological processes. In order to find out the genes with critical effects, we have searched for transcription factors in TFCat database []. […]

library_books

An atlas of mouse CD4+ T cell transcriptomes

2015
Biol Direct
PMCID: 4384382
PMID: 25886751
DOI: 10.1186/s13062-015-0045-x

[…] Mouse genes were annotated by cross-referencing mouse gene symbols against the following functional annotation databases: mouse Gene Ontology annotations [], DBD [], TFCat [], IMMPORT [], and Immunome []. The following prediction algorithms were used to annotate signal sequences and transmembrane regions: Ensembl’s transmembrane TMHMM [] and SignalP [] assignments […]

library_books

Gene Ontology annotation of sequence specific DNA binding transcription factors: setting the stage for a large scale curation effort

2013
PMCID: 3753819
PMID: 23981286
DOI: 10.1093/database/bat062

[…] The annotation workflow is depicted in . An annotation effort typically starts with one of the scientific papers suggested in databases such as TFCat and JASPAR to document a candidate DbTF, or by searching for adequate literature in one of the following resources: UniProt (http://www.uniprot.org/), NCBI’s Entrez Gene (), iHOP (), Gene Cards […]

library_books

Finding biomarkers in non model species: literature mining of transcription factors involved in bovine embryo development

2012
BioData Min
PMCID: 3563503
PMID: 22931563
DOI: 10.1186/1756-0381-5-12

[…] sources: i) a census of human TFs previously published by [] that was regarded to be a gold standard due to the meticulous way it was created; ii) TRANSFAC, a very well known database on TFs []; iii) TFCAT [] that compiles the mouse TF genes. For these genes, human orthologs were identified by the TcoF-DB team. It must be highlighted that each TF in the TcoF-DB list was curated manually at some po […]

Citations

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TFCat institution(s)
Department of Medical Genetics, Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, University of British Columbia, Vancouver, Canada

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