TRANSFAC statistics

info info

Citations per year

info

Tool usage distribution map

info info

Associated diseases

info

Popular tool citations

chevron_left Transcription factor databases Cis-regulatory DNA element databases chevron_right
Want to access the full stats & trends on this tool?

Protocols

TRANSFAC specifications

Information


Unique identifier OMICS_00545
Name TRANSFAC
Restrictions to use License purchase required
Content license Commercial
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/TRANSFAC

Maintainer


  • person_outline Edgar Wingender

Publications for TRANSFAC

TRANSFAC citations

 (820)
call_split

Systematic pan cancer analysis of somatic allele frequency

2018
Sci Rep
PMCID: 5956099
PMID: 29769535
DOI: 10.1038/s41598-018-25462-0
call_split See protocol

[…] nnotation147/index.jsp). Pathogenicity was modeled using PolyPhen, CADD and FATHMM methods, and conservation was assessed based on GERP scores–. Transcription factor binding sites were analyzed using TRANSFAC 7.0. […]

library_books

Exosome markers associated with immune activation and oxidative stress in HIV patients on antiretroviral therapy

2018
Sci Rep
PMCID: 5940833
PMID: 29740045
DOI: 10.1038/s41598-018-25515-4

[…] base (www.exocarta.org) and the top 200 most abundant plasma proteins published previously. Functional annotation was performed by GO mapping using PANTHER (pantherdb.org) and Biobase (genexplain.com/transfac). […]

library_books

Development of a computational promoter with highly efficient expression in tumors

2018
BMC Cancer
PMCID: 5924487
PMID: 29703163
DOI: 10.1186/s12885-018-4421-7

[…] overexpress transgenes in the growing tumor area. Therefore, we designed the sequence of this promoter by bioinformatics. Figure  displays the flow chart describing the study design. According to the TRANSFAC database, 1624 genes with TF activity were identified. Subsequently, the Gene Ontology Consortium was used to define whether the activity of these TFs was associated with cell growth. Since a […]

library_books

Selection on the regulation of sympathetic nervous activity in humans and chimpanzees

2018
PLoS Genet
PMCID: 5908061
PMID: 29672586
DOI: 10.1371/journal.pgen.1007311

[…] We searched the DHS2 sequences for transcription factor binding sites on the basis of the TRANSFAC [–] and JASPAR [–] databases by running FIMO [] at the P value threshold of 10-3. Our motif search was performed for the reference human and chimpanzee genomes (hg19 and panTro4) that carried […]

call_split

Induction of muscle stem cell quiescence by the secreted niche factor Oncostatin M

2018
Nat Commun
PMCID: 5906564
PMID: 29670077
DOI: 10.1038/s41467-018-03876-8
call_split See protocol

[…] 01A, SA Bioscience) designed for quantitative RT-PCR analysis were used to amplify the putative Stat3 binding site adjacent to the mouse Pax7 locus (Chr4: 139387970-139388390), identified via Biobase Transfac analysis (Biobase Corp. MA). The Stat3 occupancy was calculated as a ratio of the amplification efficiency of Stat3 ChIP over input chromatin. […]

library_books

Synergistic co regulation and competition by a SOX9 GLI FOXA phasic transcriptional network coordinate chondrocyte differentiation transitions

2018
PLoS Genet
PMCID: 5919691
PMID: 29659575
DOI: 10.1371/journal.pgen.1007346

[…] ing DNA elements. The Position Weight Matrices used for identification of SOX9 dimer and GLI binding elements were constructed from the SOX9 binding HMG core sequence and the GLI binding consensus in TRANSFAC database respectively. […]


Want to access the full list of citations?
TRANSFAC institution(s)
Department of Bioinformatics, Medical School, University of Göttingen, Goldschmidtstr Göttingen, Germany

TRANSFAC review

star_border star_border star_border star_border star_border
star star star star star
Alvaro Sebastian's avatar image

Alvaro Sebastian

star_border star_border star_border star_border star_border
star star star star star
Dataset
Probably one of the best annotated and curated resource of transcription factor binding preferences (sites and motifs). The free version (v7.0) is very limited and outdated (year 2005). If you want to have online access to the last version, the academic price is more than 1000$. There are other open access databases that can be considered before paying that price.