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Volumn 44, Issue D1, 2016, Pages D110-D115

JASPAR 2016: A major expansion and update of the open-access database of transcription factor binding profiles

Author keywords

[No Author keywords available]

Indexed keywords

DINUCLEOTIDE; TRANSCRIPTION FACTOR; DNA BINDING PROTEIN;

EID: 84976884426     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkv1176     Document Type: Article
Times cited : (780)

References (28)
  • 1
    • 84885841612 scopus 로고    scopus 로고
    • Modeling the specificity of protein-DNA interactions
    • Stormo, G.D. (2013) Modeling the specificity of protein-DNA interactions. Quant. Biol., 1, 115-130.
    • (2013) Quant. Biol. , vol.1 , pp. 115-130
    • Stormo, G.D.1
  • 2
    • 84884695174 scopus 로고    scopus 로고
    • The next generation of transcription factor binding site prediction
    • Mathelier, A. and Wasserman, W.W. (2013) The next generation of transcription factor binding site prediction. PLoS Comput. Biol., 9, e1003214.
    • (2013) PLoS Comput. Biol. , vol.9
    • Mathelier, A.1    Wasserman, W.W.2
  • 3
    • 0035393302 scopus 로고    scopus 로고
    • Amino acid-base interactions: A three-dimensional analysis of protein-DNA interactions at an atomic level
    • Luscombe, N.M., Laskowski, R.A. and Thornton, J.M. (2001) Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level. Nucleic Acids Res., 29, 2860-2874.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 2860-2874
    • Luscombe, N.M.1    Laskowski, R.A.2    Thornton, J.M.3
  • 4
    • 0035875327 scopus 로고    scopus 로고
    • Non-independence of mnt repressor-operator interaction determined by a new quantitative multiple fluorescence relative affinity (QuMFRA) assay
    • Man, T.K. and Stormo, G.D. (2001) Non-independence of Mnt repressor-operator interaction determined by a new quantitative multiple fluorescence relative affinity (QuMFRA) assay. Nucleic Acids Res., 29, 2471-2478.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 2471-2478
    • Man, T.K.1    Stormo, G.D.2
  • 5
    • 0036493201 scopus 로고    scopus 로고
    • Nucleotides of transcription factor binding sites exert interdependent effects on the binding affinities of transcription factors
    • Bulyk, M.L., Johnson, P.L. and Church, G.M. (2002) Nucleotides of transcription factor binding sites exert interdependent effects on the binding affinities of transcription factors. Nucleic Acids Res., 30, 1255-1261.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 1255-1261
    • Bulyk, M.L.1    Johnson, P.L.2    Church, G.M.3
  • 6
    • 34249654609 scopus 로고    scopus 로고
    • Position dependencies in transcription factor binding sites
    • Tomovic, A. and Oakeley, E.J. (2007) Position dependencies in transcription factor binding sites. Bioinformatics, 23, 933-941.
    • (2007) Bioinformatics , vol.23 , pp. 933-941
    • Tomovic, A.1    Oakeley, E.J.2
  • 7
    • 2342445980 scopus 로고    scopus 로고
    • Modeling within-motif dependence for transcription factor binding site predictions
    • Zhou, Q. and Liu, J.S. (2004) Modeling within-motif dependence for transcription factor binding site predictions. Bioinformatics, 20, 909-916.
    • (2004) Bioinformatics , vol.20 , pp. 909-916
    • Zhou, Q.1    Liu, J.S.2
  • 8
    • 79957766214 scopus 로고    scopus 로고
    • Prediction of regulatory interactions from genome sequences using a biophysical model for the arabidopsis LEAFY transcription factor
    • Moyroud, E., Minguet, E.G., Ott, F., Yant, L., Pose, D., Monniaux, M., Blanchet, S., Bastien, O., Thevenon, E., Weigel, D. et al. (2011) Prediction of regulatory interactions from genome sequences using a biophysical model for the Arabidopsis LEAFY transcription factor. Plant Cell, 23, 1293-1306.
    • (2011) Plant Cell , vol.23 , pp. 1293-1306
    • Moyroud, E.1    Minguet, E.G.2    Ott, F.3    Yant, L.4    Pose, D.5    Monniaux, M.6    Blanchet, S.7    Bastien, O.8    Thevenon, E.9    Weigel, D.10
  • 9
    • 0347125328 scopus 로고    scopus 로고
    • JASPAR: An open-access database for eukaryotic transcription factor binding profiles
    • Sandelin, A., Alkema, W., Engström, P., Wasserman, W.W. and Lenhard, B. (2004) JASPAR: an open-access database for eukaryotic transcription factor binding profiles. Nucleic Acids Res., 32, D91-D94.
    • (2004) Nucleic Acids Res. , vol.32 , pp. D91-D94
    • Sandelin, A.1    Alkema, W.2    Engström, P.3    Wasserman, W.W.4    Lenhard, B.5
  • 18
    • 84941137652 scopus 로고    scopus 로고
    • TFClass: A classification of human transcription factors and their rodent orthologs
    • Wingender, E., Schoeps, T., Haubrock, M. and Donitz, J. (2015) TFClass: a classification of human transcription factors and their rodent orthologs. Nucleic Acids Res., 43, D97-D102.
    • (2015) Nucleic Acids Res. , vol.43 , pp. D97-D102
    • Wingender, E.1    Schoeps, T.2    Haubrock, M.3    Donitz, J.4
  • 21
    • 84912124204 scopus 로고    scopus 로고
    • A functional and evolutionary perspective on transcription factor binding in arabidopsis thaliana
    • Heyndrickx, K.S., Van de Velde, J., Wang, C., Weigel, D. and Vandepoele, K. (2014) A functional and evolutionary perspective on transcription factor binding in Arabidopsis thaliana. Plant Cell, 26, 3894-3910.
    • (2014) Plant Cell , vol.26 , pp. 3894-3910
    • Heyndrickx, K.S.1    Van De Velde, J.2    Wang, C.3    Weigel, D.4    Vandepoele, K.5
  • 23
    • 79952116707 scopus 로고    scopus 로고
    • Dinucleotide weight matrices for predicting transcription factor binding sites: Generalizing the position weight matrix
    • Siddharthan, R. (2010) Dinucleotide weight matrices for predicting transcription factor binding sites: generalizing the position weight matrix. PLoS One, 5, e9722.
    • (2010) PLoS One , vol.5
    • Siddharthan, R.1
  • 24
    • 84863866025 scopus 로고    scopus 로고
    • Improved models for transcription factor binding site identification using nonindependent interactions
    • Zhao, Y., Ruan, S., Pandey, M. and Stormo, G.D. (2012) Improved models for transcription factor binding site identification using nonindependent interactions. Genetics, 191, 781-790.
    • (2012) Genetics , vol.191 , pp. 781-790
    • Zhao, Y.1    Ruan, S.2    Pandey, M.3    Stormo, G.D.4
  • 25
    • 84866937220 scopus 로고    scopus 로고
    • Inferring direct DNA binding from ChIP-seq
    • Bailey, T.L. and Machanick, P. (2012) Inferring direct DNA binding from ChIP-seq. Nucleic Acids Res., 40, e128.
    • (2012) Nucleic Acids Res. , vol.40 , pp. e128
    • Bailey, T.L.1    Machanick, P.2
  • 28
    • 77957821620 scopus 로고    scopus 로고
    • BioRuby: Bioinformatics software for the ruby programming language
    • Goto, N., Prins, P., Nakao, M., Bonnal, R., Aerts, J. and Katayama, T. (2010) BioRuby: bioinformatics software for the Ruby programming language. Bioinformatics, 26, 2617-2619.
    • (2010) Bioinformatics , vol.26 , pp. 2617-2619
    • Goto, N.1    Prins, P.2    Nakao, M.3    Bonnal, R.4    Aerts, J.5    Katayama, T.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.