JASPAR 2020: update of the open-access database of transcription factor binding profiles
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JASPAR 2020 : update of the open-access database of transcription factor binding profiles. / Fornes, Oriol; Castro-Mondragon, Jaime A; Khan, Aziz; van der Lee, Robin; Zhang, Xi; Richmond, Phillip A; Modi, Bhavi P; Correard, Solenne; Gheorghe, Marius; Baranašić, Damir; Santana-Garcia, Walter; Tan, Ge; Chèneby, Jeanne; Ballester, Benoit; Parcy, François; Sandelin, Albin; Lenhard, Boris; Wasserman, Wyeth W; Mathelier, Anthony.
I: Nucleic Acids Research, Bind 48, Nr. D1, 2020, s. D87-D92.Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt
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TY - JOUR
T1 - JASPAR 2020
T2 - update of the open-access database of transcription factor binding profiles
AU - Fornes, Oriol
AU - Castro-Mondragon, Jaime A
AU - Khan, Aziz
AU - van der Lee, Robin
AU - Zhang, Xi
AU - Richmond, Phillip A
AU - Modi, Bhavi P
AU - Correard, Solenne
AU - Gheorghe, Marius
AU - Baranašić, Damir
AU - Santana-Garcia, Walter
AU - Tan, Ge
AU - Chèneby, Jeanne
AU - Ballester, Benoit
AU - Parcy, François
AU - Sandelin, Albin
AU - Lenhard, Boris
AU - Wasserman, Wyeth W
AU - Mathelier, Anthony
N1 - © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.
PY - 2020
Y1 - 2020
N2 - JASPAR (http://jaspar.genereg.net) is an open-access database of curated, non-redundant transcription factor (TF)-binding profiles stored as position frequency matrices (PFMs) for TFs across multiple species in six taxonomic groups. In this 8th release of JASPAR, the CORE collection has been expanded with 245 new PFMs (169 for vertebrates, 42 for plants, 17 for nematodes, 10 for insects, and 7 for fungi), and 156 PFMs were updated (125 for vertebrates, 28 for plants and 3 for insects). These new profiles represent an 18% expansion compared to the previous release. JASPAR 2020 comes with a novel collection of unvalidated TF-binding profiles for which our curators did not find orthogonal supporting evidence in the literature. This collection has a dedicated web form to engage the community in the curation of unvalidated TF-binding profiles. Moreover, we created a Q&A forum to ease the communication between the user community and JASPAR curators. Finally, we updated the genomic tracks, inference tool, and TF-binding profile similarity clusters. All the data is available through the JASPAR website, its associated RESTful API, and through the JASPAR2020 R/Bioconductor package.
AB - JASPAR (http://jaspar.genereg.net) is an open-access database of curated, non-redundant transcription factor (TF)-binding profiles stored as position frequency matrices (PFMs) for TFs across multiple species in six taxonomic groups. In this 8th release of JASPAR, the CORE collection has been expanded with 245 new PFMs (169 for vertebrates, 42 for plants, 17 for nematodes, 10 for insects, and 7 for fungi), and 156 PFMs were updated (125 for vertebrates, 28 for plants and 3 for insects). These new profiles represent an 18% expansion compared to the previous release. JASPAR 2020 comes with a novel collection of unvalidated TF-binding profiles for which our curators did not find orthogonal supporting evidence in the literature. This collection has a dedicated web form to engage the community in the curation of unvalidated TF-binding profiles. Moreover, we created a Q&A forum to ease the communication between the user community and JASPAR curators. Finally, we updated the genomic tracks, inference tool, and TF-binding profile similarity clusters. All the data is available through the JASPAR website, its associated RESTful API, and through the JASPAR2020 R/Bioconductor package.
U2 - 10.1093/nar/gkz1001
DO - 10.1093/nar/gkz1001
M3 - Journal article
C2 - 31701148
VL - 48
SP - D87-D92
JO - Nucleic Acids Research
JF - Nucleic Acids Research
SN - 0305-1048
IS - D1
ER -
ID: 230096231