JASPAR

JASPAR
Content
Description	an open-access database of transcription factor binding profiles
Data types; captured	Eukaryotic transcription factors, their binding sites and binding profiles
Organisms	eukaryotes
Contact
Authors	Sandelin, A
Primary citation	Sandelin, A. et al. (2004) [1]
Release date	2004
Access
Website	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)[2] 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 five major updates and new releases in 2006, 2008, 2010, 2014, 2016 and 2018, which is the latest release of JASPAR.[3][4][5][6][7][8]

Availability

The JASPAR database is an open-source and freely available for scientific community at http://jaspar.genereg.net/.

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References

Sandelin, A; Alkema, W; Engström, P; Wasserman, WW; Lenhard, B (1 January 2004). "JASPAR: an open-access database for eukaryotic transcription factor binding profiles". Nucleic Acids Research. 32 (Database issue): D91-4. doi:10.1093/nar/gkh012. PMC 308747. PMID 14681366.
Mathelier, A; Wasserman, W.W. (5 September 2013). "The Next Generation of Transcription Factor Binding Site Prediction". PLoS Computational Biology. 9: e1003214. doi:10.1371/journal.pcbi.1003214. PMC 3764009. PMID 24039567.
Vlieghe, D; Sandelin, A; De Bleser, PJ; Vleminckx, K; Wasserman, WW; van Roy, F; Lenhard, B (1 January 2006). "A new generation of JASPAR, the open-access repository for transcription factor binding site profiles". Nucleic Acids Research. 34 (Database issue): D95-7. doi:10.1093/nar/gkj115. PMC 1347477. PMID 16381983.
Bryne, JC; Valen, E; Tang, MH; Marstrand, T; Winther, O; da Piedade, I; Krogh, A; Lenhard, B; Sandelin, A (January 2008). "JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update". Nucleic Acids Research. 36 (Database issue): D102-6. doi:10.1093/nar/gkm955. PMC 2238834. PMID 18006571.
Portales-Casamar, E; Thongjuea, S; Kwon, AT; Arenillas, D; Zhao, X; Valen, E; Yusuf, D; Lenhard, B; Wasserman, WW; Sandelin, A (January 2010). "JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles". Nucleic Acids Research. 38 (Database issue): D105-10. doi:10.1093/nar/gkp950. PMC 2808906. PMID 19906716.
Mathelier, A; Zhao, X; Zhang, AW; Parcy, F; Worsley-Hunt, R; Arenillas, DJ; Buchman, S; Chen, CY; Chou, A; Ienasescu, H; Lim, J; Shyr, C; Tan, G; Zhou, M; Lenhard, B; Sandelin, A; Wasserman, WW (January 2014). "JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles". Nucleic Acids Research. 42 (Database issue): D142-7. doi:10.1093/nar/gkt997. PMC 3965086. PMID 24194598.
Mathelier, A; Fornes, O; Arenillas, DJ; Chen, CY; Denay, G; Lee, J; Shi, W; Shyr, C; Tan, G; Worsley-Hunt, R; Zhang, AW; Parcy, F; Lenhard, B; Sandelin, A; Wasserman, WW (4 January 2016). "JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles". Nucleic Acids Research. 44 (D1): D110-5. doi:10.1093/nar/gkv1176. PMC 4702842. PMID 26531826.
Khan, Aziz; Fornes, Oriol; Stigliani, Arnaud; Gheorghe, Marius; Castro-Mondragon, Jaime A.; van der Lee, Robin; Bessy, Adrien; Chèneby, Jeanne; Kulkarni, Shubhada R.; Tan, Ge; Baranasic, Damir; Arenillas, David J.; Sandelin, Albin; Vandepoele, Klaas; Lenhard, Boris; Ballester, Benoît; Wasserman, Wyeth W.; Parcy, François; Mathelier, Anthony (13 November 2017). "JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework". Nucleic Acids Research. 46: D260–D266. doi:10.1093/nar/gkx1126. PMC 5753243. PMID 29140473.

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[1] Sandelin, A; Alkema, W; Engström, P; Wasserman, WW; Lenhard, B (1 January 2004). "JASPAR: an open-access database for eukaryotic transcription factor binding profiles". Nucleic Acids Research. 32 (Database issue): D91-4. doi:10.1093/nar/gkh012. PMC 308747. PMID 14681366.

[2] Mathelier, A; Wasserman, W.W. (5 September 2013). "The Next Generation of Transcription Factor Binding Site Prediction". PLoS Computational Biology. 9: e1003214. doi:10.1371/journal.pcbi.1003214. PMC 3764009. PMID 24039567.

[3] Vlieghe, D; Sandelin, A; De Bleser, PJ; Vleminckx, K; Wasserman, WW; van Roy, F; Lenhard, B (1 January 2006). "A new generation of JASPAR, the open-access repository for transcription factor binding site profiles". Nucleic Acids Research. 34 (Database issue): D95-7. doi:10.1093/nar/gkj115. PMC 1347477. PMID 16381983.

[4] Bryne, JC; Valen, E; Tang, MH; Marstrand, T; Winther, O; da Piedade, I; Krogh, A; Lenhard, B; Sandelin, A (January 2008). "JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update". Nucleic Acids Research. 36 (Database issue): D102-6. doi:10.1093/nar/gkm955. PMC 2238834. PMID 18006571.

[5] Portales-Casamar, E; Thongjuea, S; Kwon, AT; Arenillas, D; Zhao, X; Valen, E; Yusuf, D; Lenhard, B; Wasserman, WW; Sandelin, A (January 2010). "JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles". Nucleic Acids Research. 38 (Database issue): D105-10. doi:10.1093/nar/gkp950. PMC 2808906. PMID 19906716.

[6] Mathelier, A; Zhao, X; Zhang, AW; Parcy, F; Worsley-Hunt, R; Arenillas, DJ; Buchman, S; Chen, CY; Chou, A; Ienasescu, H; Lim, J; Shyr, C; Tan, G; Zhou, M; Lenhard, B; Sandelin, A; Wasserman, WW (January 2014). "JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles". Nucleic Acids Research. 42 (Database issue): D142-7. doi:10.1093/nar/gkt997. PMC 3965086. PMID 24194598.

[7] Mathelier, A; Fornes, O; Arenillas, DJ; Chen, CY; Denay, G; Lee, J; Shi, W; Shyr, C; Tan, G; Worsley-Hunt, R; Zhang, AW; Parcy, F; Lenhard, B; Sandelin, A; Wasserman, WW (4 January 2016). "JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles". Nucleic Acids Research. 44 (D1): D110-5. doi:10.1093/nar/gkv1176. PMC 4702842. PMID 26531826.

[8] Khan, Aziz; Fornes, Oriol; Stigliani, Arnaud; Gheorghe, Marius; Castro-Mondragon, Jaime A.; van der Lee, Robin; Bessy, Adrien; Chèneby, Jeanne; Kulkarni, Shubhada R.; Tan, Ge; Baranasic, Damir; Arenillas, David J.; Sandelin, Albin; Vandepoele, Klaas; Lenhard, Boris; Ballester, Benoît; Wasserman, Wyeth W.; Parcy, François; Mathelier, Anthony (13 November 2017). "JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework". Nucleic Acids Research. 46: D260–D266. doi:10.1093/nar/gkx1126. PMC 5753243. PMID 29140473.