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JASPAR: an open-access database for eukaryotic transcription factor binding profiles.
Sandelin A, Alkema W, Engström P, Wasserman WW, Lenhard B. Sandelin A, et al. Among authors: wasserman ww. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D91-4. doi: 10.1093/nar/gkh012. Nucleic Acids Res. 2004. PMID: 14681366 Free PMC article.
JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework.
Khan A, Fornes O, Stigliani A, Gheorghe M, Castro-Mondragon JA, van der Lee R, Bessy A, Chèneby J, Kulkarni SR, Tan G, Baranasic D, Arenillas DJ, Sandelin A, Vandepoele K, Lenhard B, Ballester B, Wasserman WW, Parcy F, Mathelier A. Khan A, et al. Among authors: wasserman ww. Nucleic Acids Res. 2018 Jan 4;46(D1):D1284. doi: 10.1093/nar/gkx1188. Nucleic Acids Res. 2018. PMID: 29161433 Free PMC article. No abstract available.
MANTA2, update of the Mongo database for the analysis of transcription factor binding site alterations.
Fornes O, Gheorghe M, Richmond PA, Arenillas DJ, Wasserman WW, Mathelier A. Fornes O, et al. Among authors: wasserman ww. Sci Data. 2018 Jul 24;5:180141. doi: 10.1038/sdata.2018.141. Sci Data. 2018. PMID: 30040077 Free PMC article.
DNA Shape Features Improve Transcription Factor Binding Site Predictions In Vivo.
Mathelier A, Xin B, Chiu TP, Yang L, Rohs R, Wasserman WW. Mathelier A, et al. Among authors: wasserman ww. Cell Syst. 2016 Sep 28;3(3):278-286.e4. doi: 10.1016/j.cels.2016.07.001. Epub 2016 Aug 18. Cell Syst. 2016. PMID: 27546793 Free PMC article.
NovelFam3000--uncharacterized human protein domains conserved across model organisms.
Kemmer D, Podowski RM, Arenillas D, Lim J, Hodges E, Roth P, Sonnhammer EL, Höög C, Wasserman WW. Kemmer D, et al. Among authors: wasserman ww. BMC Genomics. 2006 Mar 13;7:48. doi: 10.1186/1471-2164-7-48. BMC Genomics. 2006. PMID: 16533400 Free PMC article.
Evaluating the impact of single nucleotide variants on transcription factor binding.
Shi W, Fornes O, Mathelier A, Wasserman WW. Shi W, et al. Among authors: wasserman ww. Nucleic Acids Res. 2016 Dec 1;44(21):10106-10116. doi: 10.1093/nar/gkw691. Epub 2016 Aug 4. Nucleic Acids Res. 2016. PMID: 27492288 Free PMC article.
JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles.
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. Mathelier A, et al. Among authors: wasserman ww. Nucleic Acids Res. 2016 Jan 4;44(D1):D110-5. doi: 10.1093/nar/gkv1176. Epub 2015 Nov 3. Nucleic Acids Res. 2016. PMID: 26531826 Free PMC article.
TFBSshape: a motif database for DNA shape features of transcription factor binding sites.
Yang L, Zhou T, Dror I, Mathelier A, Wasserman WW, Gordân R, Rohs R. Yang L, et al. Among authors: wasserman ww. Nucleic Acids Res. 2014 Jan;42(Database issue):D148-55. doi: 10.1093/nar/gkt1087. Epub 2013 Nov 7. Nucleic Acids Res. 2014. PMID: 24214955 Free PMC article.
The next generation of transcription factor binding site prediction.
Mathelier A, Wasserman WW. Mathelier A, et al. Among authors: wasserman ww. PLoS Comput Biol. 2013;9(9):e1003214. doi: 10.1371/journal.pcbi.1003214. Epub 2013 Sep 5. PLoS Comput Biol. 2013. PMID: 24039567 Free PMC article.
The transcription factor encyclopedia.
Yusuf D, Butland SL, Swanson MI, Bolotin E, Ticoll A, Cheung WA, Zhang XY, Dickman CT, Fulton DL, Lim JS, Schnabl JM, Ramos OH, Vasseur-Cognet M, de Leeuw CN, Simpson EM, Ryffel GU, Lam EW, Kist R, Wilson MS, Marco-Ferreres R, Brosens JJ, Beccari LL, Bovolenta P, Benayoun BA, Monteiro LJ, Schwenen HD, Grontved L, Wederell E, Mandrup S, Veitia RA, Chakravarthy H, Hoodless PA, Mancarelli MM, Torbett BE, Banham AH, Reddy SP, Cullum RL, Liedtke M, Tschan MP, Vaz M, Rizzino A, Zannini M, Frietze S, Farnham PJ, Eijkelenboom A, Brown PJ, Laperrière D, Leprince D, de Cristofaro T, Prince KL, Putker M, del Peso L, Camenisch G, Wenger RH, Mikula M, Rozendaal M, Mader S, Ostrowski J, Rhodes SJ, Van Rechem C, Boulay G, Olechnowicz SW, Breslin MB, Lan MS, Nanan KK, Wegner M, Hou J, Mullen RD, Colvin SC, Noy PJ, Webb CF, Witek ME, Ferrell S, Daniel JM, Park J, Waldman SA, Peet DJ, Taggart M, Jayaraman PS, Karrich JJ, Blom B, Vesuna F, O'Geen H, Sun Y, Gronostajski RM, Woodcroft MW, Hough MR, Chen E, Europe-Finner GN, Karolczak-Bayatti M, Bailey J, Hankinson O, Raman V, LeBrun DP, Biswal S, Harvey CJ, DeBruyne JP, Hogenesch JB, Hevner RF, Héligon C, Luo XM, Blank MC, Millen KJ, Sharlin DS, Forrest D, Dahlman-Wright K, Zhao C, Mishima Y, Sinha S, Chakrabarti R, Portales-Casamar E, Sladek FM, Bradley PH, Wasserman WW. Yusuf D, et al. Among authors: wasserman ww. Genome Biol. 2012;13(3):R24. doi: 10.1186/gb-2012-13-3-r24. Genome Biol. 2012. PMID: 22458515 Free PMC article.
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