CollecTF, a play on words using the French collectif [collective] and the acronym for
transcription factor [TF], is a database of transcription factor binding sites (TFBS) in the
CollecTF aims at becoming a reference, highly-accessed database by relying on its ability to
customize navigation and data extraction, its relevance to the community, the quality and detail of
the stored data and the up-to-date nature of the stored information.
CollecTF exclusively stores data on experimentally-validated TFBS and places special emphasis on
providing a transparent curation process that captures the experimental support for sites as
reported by authors in peer-reviewed publications.
The CollecTF curation model combines direct author submissions and in-house curation. If you
have data to submit, please do
Reported binding sites are mapped
to NCBI RefSeq complete genome
records to provide genomic context and the experimental process is detailed
during curation. Curation records are open for inspection. Please,
let us know if you spot an error.
CollecTF focuses on providing fully customizable access to the stored
data. The database can be browsed by transcription factor families, NCBI taxonomy or
experimental support, or through
customized searches integrating these three elements that allow users
to specify the desired level of experimental support.
CollecTF reports export to common FASTA and flat-file formats,
and periodic flat-file releases of
the database are available for download.
CollecTF data is periodically submitted to NCBI, where it is integrated
into RefSeq complete genome
records through db_xref links.
CollecTF generates specific records for
all UniProtKB identifiers in
the database, and these records are cross-linked in the corresponding
UniProtKB entry through a db_xref field.
CollecTF generates Gene Ontology
(GO) annotations to formalize the relationship between a transcription
factor and the chromosomal DNA it binds and the genes upon which such
binding has a transcriptionalregulatory effect.
experimental evidence is mapped to
standardized Evidence Ontology