JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles

Rauluševičiūtė, Ieva; Puig, Rafael Riudavets; Blanc‐Mathieu, Romain; Castro-Mondragón, Jaime A.; Ferenc, Katalin; Kumar, Vipin; Lemma, Roza Berhanu; Lucas, Jérémy; Chèneby, Jeanne; Baranas̆ić, Damir; Khan, Aziz; Fornés, Oriol; Gundersen, Sveinung; Johansen, Morten; Hovig, Eivind; Lenhard, Boris; Sandelin, Albin; Wasserman, Wyeth W.; Parcy, François; Mathelier, Anthony

doi:10.1093/nar/gkad1059

articleNucleic Acids ResearchNov 14, 2023GOLD OA

JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles

IRIeva Rauluševičiūtė RRRafael Riudavets Puig RBRomain Blanc‐Mathieu JAJaime A. Castro-Mondragón KFKatalin Ferenc

University of Oslo · Centre National de la Recherche Scientifique · +14 more institutions

PubMed

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Abstract

JASPAR (https://jaspar.elixir.no/) is a widely-used open-access database presenting manually curated high-quality and non-redundant DNA-binding profiles for transcription factors (TFs) across taxa. In this 10th release and 20th-anniversary update, the CORE collection has expanded with 329 new profiles. We updated three existing profiles and provided orthogonal support for 72 profiles from the previous release's UNVALIDATED collection. Altogether, the JASPAR 2024 update provides a 20% increase in CORE profiles from the previous release. A trimming algorithm enhanced profiles by removing low information content flanking base pairs, which were likely uninformative (within the capacity of the PFM models) for TFBS…

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Keywords

Biology
Transcription factor
DNA binding site
Computational biology
Transcription (linguistics)
Genetics
Database
Promoter

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