JASPAR

{{short description|Open-access database storing curated, non-redundant transcription factor (TF) binding profiles}}

{{infobox biodatabase

|title = JASPAR

|logo =File:Database.png

|description = an open-access database of transcription factor binding profiles

|scope = Eukaryotic transcription factors, their binding sites and binding profiles

|organism = eukaryotes

|center =

|laboratory =

|author = Sandelin, A

|citation = Sandelin, A. et al. (2004) {{cite journal|last1=Sandelin|first1=A|last2=Alkema|first2=W|last3=Engström|first3=P|last4=Wasserman|first4=WW|last5=Lenhard|first5=B|title=JASPAR: an open-access database for eukaryotic transcription factor binding profiles.|journal=Nucleic Acids Research|date=1 January 2004|volume=32|issue=Database issue|pages=D91-4|doi=10.1093/nar/gkh012|pmid=14681366|pmc=308747}}

|released = 2004

|url =http://jaspar.genereg.net/

}}

JASPAR is an open access and widely used database of manually curated, non-redundant transcription factor (TF) binding profiles stored as position frequency matrices (PFM) and transcription factor flexible models (TFFM){{cite journal|last1=Mathelier|first1=A|last2=Wasserman|first2=W.W.|title=The Next Generation of Transcription Factor Binding Site Prediction.|journal=PLOS Computational Biology|date=5 September 2013|volume=9|issue=9|pages=e1003214|doi=10.1371/journal.pcbi.1003214|pmid=24039567|pmc=3764009|bibcode=2013PLSCB...9E3214M|doi-access=free}} for TFs from species in six taxonomic groups. From the supplied PFMs, users may generate position-specific weight matrices (PWM). The JASPAR database was introduced in 2004. There were seven major updates and new releases in 2006, 2008, 2010, 2014, 2016, 2018, 2020 and 2022, which is the latest release of JASPAR.{{cite journal|last1=Vlieghe|first1=D|last2=Sandelin|first2=A|last3=De Bleser|first3=PJ|last4=Vleminckx|first4=K|last5=Wasserman|first5=WW|last6=van Roy|first6=F|last7=Lenhard|first7=B|title=A new generation of JASPAR, the open-access repository for transcription factor binding site profiles.|journal=Nucleic Acids Research|date=1 January 2006|volume=34|issue=Database issue|pages=D95-7|doi=10.1093/nar/gkj115|pmid=16381983|pmc=1347477}}{{cite journal|last1=Bryne|first1=JC|last2=Valen|first2=E|last3=Tang|first3=MH|last4=Marstrand|first4=T|last5=Winther|first5=O|last6=da Piedade|first6=I|last7=Krogh|first7=A|last8=Lenhard|first8=B|last9=Sandelin|first9=A|title=JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update.|journal=Nucleic Acids Research|date=January 2008|volume=36|issue=Database issue|pages=D102-6|doi=10.1093/nar/gkm955|pmid=18006571|pmc=2238834}}{{cite journal|last1=Portales-Casamar|first1=E|last2=Thongjuea|first2=S|last3=Kwon|first3=AT|last4=Arenillas|first4=D|last5=Zhao|first5=X|last6=Valen|first6=E|last7=Yusuf|first7=D|last8=Lenhard|first8=B|last9=Wasserman|first9=WW|last10=Sandelin|first10=A|title=JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles.|journal=Nucleic Acids Research|date=January 2010|volume=38|issue=Database issue|pages=D105-10|doi=10.1093/nar/gkp950|pmid=19906716|pmc=2808906}}{{cite journal|last1=Mathelier|first1=A|last2=Zhao|first2=X|last3=Zhang|first3=AW|last4=Parcy|first4=F|last5=Worsley-Hunt|first5=R|last6=Arenillas|first6=DJ|last7=Buchman|first7=S|last8=Chen|first8=CY|last9=Chou|first9=A|last10=Ienasescu|first10=H|last11=Lim|first11=J|last12=Shyr|first12=C|last13=Tan|first13=G|last14=Zhou|first14=M|last15=Lenhard|first15=B|last16=Sandelin|first16=A|last17=Wasserman|first17=WW|title=JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles.|journal=Nucleic Acids Research|date=January 2014|volume=42|issue=Database issue|pages=D142-7|doi=10.1093/nar/gkt997|pmid=24194598|pmc=3965086}}{{cite journal|last1=Mathelier|first1=A|last2=Fornes|first2=O|last3=Arenillas|first3=DJ|last4=Chen|first4=CY|last5=Denay|first5=G|last6=Lee|first6=J|last7=Shi|first7=W|last8=Shyr|first8=C|last9=Tan|first9=G|last10=Worsley-Hunt|first10=R|last11=Zhang|first11=AW|last12=Parcy|first12=F|last13=Lenhard|first13=B|last14=Sandelin|first14=A|last15=Wasserman|first15=WW|title=JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles.|journal=Nucleic Acids Research|date=4 January 2016|volume=44|issue=D1|pages=D110-5|doi=10.1093/nar/gkv1176|pmid=26531826|pmc=4702842}}{{cite journal|last1=Khan|first1=Aziz|last2=Fornes|first2=Oriol|last3=Stigliani|first3=Arnaud|last4=Gheorghe|first4=Marius|last5=Castro-Mondragon|first5=Jaime A.|last6=van der Lee|first6=Robin|last7=Bessy|first7=Adrien|last8=Chèneby|first8=Jeanne|last9=Kulkarni|first9=Shubhada R.|last10=Tan|first10=Ge|last11=Baranasic|first11=Damir|last12=Arenillas|first12=David J.|last13=Sandelin|first13=Albin|last14=Vandepoele|first14=Klaas|last15=Lenhard|first15=Boris|last16=Ballester|first16=Benoît|last17=Wasserman|first17=Wyeth W.|last18=Parcy|first18=François|last19=Mathelier|first19=Anthony|title=JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework|journal=Nucleic Acids Research|date=13 November 2017|doi=10.1093/nar/gkx1126|volume=46|issue=D1|pages=D260–D266|pmid=29140473|pmc=5753243}}{{cite journal|last1=Fornes|first1=Oriol|last2=Castro-Mondragon|first2=Jaime A.|last3=Khan|first3=Aziz|last4=van der Lee|first4=Robin|last5=Zhang|first5=Xi|last6=Richmond|first6=Phillip A.|last7=Modi|first7=Bhavi P.|last8=Correard|first8=Solenne|last9=Gheorghe|first9=Marius|last10=Baranašić|first10=Damir|last11=Santana-Garcia|first11=Walter|last12=Tan|first12=Ge|last13=Chèneby|first13=Jeanne|last14=Ballester|first14=Benoit|last15=Parcy|first15=François|last16=Sandelin|first16=Albin|last17=Lenhard|first17=Boris|last18=Wasserman|first18=Wyeth W.|last19=Mathelier|first19=Anthony|title=JASPAR 2020: update of the open-access database of transcription factor binding profiles|journal=Nucleic Acids Research|date=8 January 2020|doi=10.1093/nar/gkz1001|volume=48|issue=D1|pages=D87–D92|pmid=31701148|pmc=7145627}}

{{cite journal | vauthors = Xuan Lin QX, Sian S, An O, Thieffry D, Jha S, Benoukraf T | title = MethMotif: an integrative cell specific database of transcription factor binding motifs coupled with DNA methylation profiles | journal = Nucleic Acids Research | volume = 47 | issue = D1 | pages = D145–D154 | date = January 2019 | pmid = 30380113 | pmc = 6323897 | doi = 10.1093/nar/gky1005 | author-link6 = Touati Benoukraf }}