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Transcription factor binding site databases

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Transcription factor binding site databases

Comprehensive List of transcription factor binding sites (TFBSs) databases based on ChIP-seq data as follows:

Name Description type Link References
ChIPBase ChIPBase a database for transcription factor binding sites, motifs and decoding the transcriptional regulation of lncRNAS, miRNAs and protein-coding genes from ~10,200 curated peak datasets derived from ChIP-seq methods in 10 species database [website [1]
ChEA transcription factor regulation inferred from integrating genome-wide ChIP-X experiments. database website [2]
CistromeMap a knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human. database website [3]
CTCFBSDB a database for CTCF binding sites and genome organization database website [4]
Factorbook a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium. database website [5]
hmChIP a database and web server for exploring publicly available human and mouse ChIP-seq and ChIP-chip data. database website [6]
HOCOMOCO a comprehensive collection of human transcription factor binding sites models. database website [7]
JASPAR The JASPAR CORE database contains a curated, non-redundant set of profiles, derived from published collections of experimentally defined transcription factor binding sites for eukaryotes. database [website [8]
SwissRegulon a database of genome-wide annotations of regulatory sites. database [website [9]
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  2. ^ . PMID 20709693. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  3. ^ . PMID 22495751. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  4. ^ . PMID 23193294. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  5. ^ . PMID 23203885. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  6. ^ . PMID 21450710. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  7. ^ . PMID 26586801. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  8. ^ . PMID 26531826. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
  9. ^ . PMID 23180783. {{cite journal}}: Cite journal requires |journal= (help); Missing or empty |title= (help)
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