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Volumn 40, Issue 15, 2012, Pages

i-cisTarget: An integrative genomics method for the prediction of regulatory features and cis-regulatory modules

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TRANSCRIPTION FACTOR;

EID: 84867313376     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks543     Document Type: Article
Times cited : (140)

References (83)
  • 1
    • 70349312354 scopus 로고    scopus 로고
    • ChIP-seq: Advantages and challenges of a maturing technology
    • Park, P. J. (2009) ChIP-seq: advantages and challenges of a maturing technology. Nat. Rev. Genet., 10, 669-680.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 669-680
    • Park, P.J.1
  • 3
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: A revolutionary tool for transcriptomics
    • Wang, Z., Gerstein, M. and Snyder, M. (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat. Rev. Genet., 10, 57-63.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 5
    • 77953808473 scopus 로고    scopus 로고
    • Next-generation genomics: An integrative approach
    • Hawkins, R. D., Hon, G. C. and Ren, B. (2010) Next-generation genomics: an integrative approach. Nat. Rev. Genet., 11, 476-486.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 476-486
    • Hawkins, R.D.1    Hon, G.C.2    Ren, B.3
  • 6
    • 2542584654 scopus 로고    scopus 로고
    • Detection of functional DNA motifs via statistical over-representation
    • Frith, M. C., Fu, Y., Yu, L., Chen, J.-F., Hansen, U. and Weng, Z. (2004) Detection of functional DNA motifs via statistical over-representation. Nucleic Acids Res., 32, 1372-1381.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 1372-1381
    • Frith, M.C.1    Fu, Y.2    Yu, L.3    Chen, J.-F.4    Hansen, U.5    Weng, Z.6
  • 8
    • 60149084519 scopus 로고    scopus 로고
    • PASTAA: Identifying transcription factors associated with sets of co-regulated genes
    • Roider, H. G., Manke, T., O'Keeffe, S., Vingron, M. and Haas, S. A. (2009) PASTAA: identifying transcription factors associated with sets of co-regulated genes. Bioinformatics, 25, 435-442.
    • (2009) Bioinformatics , vol.25 , pp. 435-442
    • Roider, H.G.1    Manke, T.2    O'Keeffe, S.3    Vingron, M.4    Haas, S.A.5
  • 9
    • 67849114236 scopus 로고    scopus 로고
    • Pscan: Finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes
    • Zambelli, F., Pesole, G. and Pavesi, G. (2009) Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes. Nucleic Acids Res., 37, W247-W252.
    • (2009) Nucleic Acids Res. , vol.37
    • Zambelli, F.1    Pesole, G.2    Pavesi, G.3
  • 10
    • 52749097035 scopus 로고    scopus 로고
    • Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules
    • Turatsinze, J.-V., Thomas-Chollier, M., Defrance, M. and van Helden, J. (2008) Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules. Nat. Protoc., 3, 1578-1588.
    • (2008) Nat. Protoc. , vol.3 , pp. 1578-1588
    • Turatsinze, J.-V.1    Thomas-Chollier, M.2    Defrance, M.3    Van Helden, J.4
  • 11
    • 0028685490 scopus 로고
    • Fitting a mixture model by expectation maximization to discover motifs in biopolymers
    • Bailey, T. L. and Elkan, C. (1994) Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Proc. Int. Conf. ISMB, 2, 28-36.
    • (1994) Proc. Int. Conf. ISMB , vol.2 , pp. 28-36
    • Bailey, T.L.1    Elkan, C.2
  • 12
    • 0036137323 scopus 로고    scopus 로고
    • A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling
    • Thijs, G., Lescot, M., Marchal, K., Rombauts, S., De Moor, B., Rouzé, P. and Moreau, Y. (2001) A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling. Bioinformatics, 17, 1113-1122.
    • (2001) Bioinformatics , vol.17 , pp. 1113-1122
    • Thijs, G.1    Lescot, M.2    Marchal, K.3    Rombauts, S.4    De Moor, B.5    Rouzé, P.6    Moreau, Y.7
  • 14
    • 79958117256 scopus 로고    scopus 로고
    • MEME-ChIP: Motif analysis of large DNA datasets
    • Machanick, P. and Bailey, T. L. (2011) MEME-ChIP: motif analysis of large DNA datasets. Bioinformatics, 27, 1696-1697.
    • (2011) Bioinformatics , vol.27 , pp. 1696-1697
    • Machanick, P.1    Bailey, T.L.2
  • 19
    • 68849103482 scopus 로고    scopus 로고
    • Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions
    • MacArthur, S., Li, X.-Y., Li, J., Brown, J. B., Chu, H. C., Zeng, L., Grondona, B. P., Hechmer, A., Simirenko, L., Keränen, S. V. E. et al. (2009) Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions. Genome Biol., 10, R80.
    • (2009) Genome Biol. , vol.10
    • MacArthur, S.1    Li, X.-Y.2    Li, J.3    Brown, J.B.4    Chu, H.C.5    Zeng, L.6    Grondona, B.P.7    Hechmer, A.8    Simirenko, L.9    Keränen, S.V.E.10
  • 20
    • 0042121118 scopus 로고    scopus 로고
    • Cluster-Buster: Finding dense clusters of motifs in DNA sequences
    • Frith, M. C., Li, M. C. and Weng, Z. (2003) Cluster-Buster: finding dense clusters of motifs in DNA sequences. Nucleic Acids Res., 31, 3666-3668.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3666-3668
    • Frith, M.C.1    Li, M.C.2    Weng, Z.3
  • 22
    • 33747853888 scopus 로고    scopus 로고
    • Stubb: A program for discovery and analysis of cis-regulatory modules
    • Sinha, S., Liang, Y. and Siggia, E. (2006) Stubb: a program for discovery and analysis of cis-regulatory modules. Nucleic Acids Res., 34, W555-W559.
    • (2006) Nucleic Acids Res. , vol.34
    • Sinha, S.1    Liang, Y.2    Siggia, E.3
  • 23
    • 13244271362 scopus 로고    scopus 로고
    • Cross-species comparison significantly improves genome-wide prediction of cis-regulatory modules in Drosophila
    • Sinha, S., Schroeder, M. D., Unnerstall, U., Gaul, U. and Siggia, E. D. (2004) Cross-species comparison significantly improves genome-wide prediction of cis-regulatory modules in Drosophila. BMC Bioinformatics, 5, 129.
    • (2004) BMC Bioinformatics , vol.5 , pp. 129
    • Sinha, S.1    Schroeder, M.D.2    Unnerstall, U.3    Gaul, U.4    Siggia, E.D.5
  • 24
    • 2942576308 scopus 로고    scopus 로고
    • Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo
    • Rajewsky, N., Vergassola, M., Gaul, U. and Siggia, E. D. (2002) Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo. BMC Bioinformatics, 3, 30.
    • (2002) BMC Bioinformatics , vol.3 , pp. 30
    • Rajewsky, N.1    Vergassola, M.2    Gaul, U.3    Siggia, E.D.4
  • 25
    • 83655163843 scopus 로고    scopus 로고
    • Use of a Drosophila genome-wide conserved sequence database to identify functionally related cis-regulatory enhancers
    • Brody, T., Yavatkar, A. S., Kuzin, A., Kundu, M., Tyson, L. J., Ross, J., Lin, T.-Y., Lee, C.-H., Awasaki, T., Lee, T. et al. (2012) Use of a Drosophila genome-wide conserved sequence database to identify functionally related cis-regulatory enhancers. Dev. Dynamics, 241, 169-189.
    • (2012) Dev. Dynamics , vol.241 , pp. 169-189
    • Brody, T.1    Yavatkar, A.S.2    Kuzin, A.3    Kundu, M.4    Tyson, L.J.5    Ross, J.6    Lin, T.-Y.7    Lee, C.-H.8    Awasaki, T.9    Lee, T.10
  • 26
    • 0037154273 scopus 로고    scopus 로고
    • Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome
    • Berman, B. P., Nibu, Y., Pfeiffer, B. D., Tomancak, P., Celniker, S. E., Levine, M., Rubin, G. M. and Eisen, M. B. (2002) Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome. PNAS, 99, 757-762.
    • (2002) PNAS , vol.99 , pp. 757-762
    • Berman, B.P.1    Nibu, Y.2    Pfeiffer, B.D.3    Tomancak, P.4    Celniker, S.E.5    Levine, M.6    Rubin, G.M.7    Eisen, M.B.8
  • 28
    • 77955015475 scopus 로고    scopus 로고
    • Robust target gene discovery through transcriptome perturbations and genome-wide enhancer predictions in Drosophila uncovers a regulatory basis for sensory specification
    • Aerts, S., Quan, X.-J., Claeys, A., Naval Sanchez, M., Tate, P., Yan, J. and Hassan, B. A. (2010) Robust target gene discovery through transcriptome perturbations and genome-wide enhancer predictions in Drosophila uncovers a regulatory basis for sensory specification. PLoS Biol., 8, e1000435.
    • (2010) PLoS Biol. , vol.8
    • Aerts, S.1    Quan, X.-J.2    Claeys, A.3    Naval Sanchez, M.4    Tate, P.5    Yan, J.6    Hassan, B.A.7
  • 29
    • 80555144881 scopus 로고    scopus 로고
    • Using cisTargetX to predict transcriptional targets and networks in Drosophila
    • Potier, D., Atak, Z. K., Sanchez, M. N., Herrmann, C. and Aerts, S. (2012) Using cisTargetX to predict transcriptional targets and networks in Drosophila. Methods Mol. Biol., 786, 291-314.
    • (2012) Methods Mol. Biol. , vol.786 , pp. 291-314
    • Potier, D.1    Atak, Z.K.2    Sanchez, M.N.3    Herrmann, C.4    Aerts, S.5
  • 30
    • 41449086977 scopus 로고    scopus 로고
    • Systematic identification of mammalian regulatory motifs' target genes and functions
    • Warner, J. B., Philippakis, A. A., Jaeger, S. A., He, F. S., Lin, J. and Bulyk, M. L. (2008) Systematic identification of mammalian regulatory motifs' target genes and functions. Nat. Methods, 5, 347-353.
    • (2008) Nat. Methods , vol.5 , pp. 347-353
    • Warner, J.B.1    Philippakis, A.A.2    Jaeger, S.A.3    He, F.S.4    Lin, J.5    Bulyk, M.L.6
  • 31
    • 47149110727 scopus 로고    scopus 로고
    • ModuleMiner - Improved computational detection of cis-regulatory modules: Are there different modes of gene regulation in embryonic development and adult tissues?
    • Van Loo, P., Aerts, S., Thienpont, B., De Moor, B., Moreau, Y. and Marynen, P. (2008) ModuleMiner - improved computational detection of cis-regulatory modules: are there different modes of gene regulation in embryonic development and adult tissues? Genome Biol., 9, R66.
    • (2008) Genome Biol. , vol.9
    • Van Loo, P.1    Aerts, S.2    Thienpont, B.3    De Moor, B.4    Moreau, Y.5    Marynen, P.6
  • 32
    • 79952266465 scopus 로고    scopus 로고
    • Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data
    • Pique-regi, R., Degner, J. F., Pai, A. A., Gaffney, D. J., Gilad, Y. and Pritchard, J. K. (2010) Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data. Genome Res., 21, 447-455.
    • (2010) Genome Res. , vol.21 , pp. 447-455
    • Pique-regi, R.1    Degner, J.F.2    Pai, A.A.3    Gaffney, D.J.4    Gilad, Y.5    Pritchard, J.K.6
  • 33
    • 77349120278 scopus 로고    scopus 로고
    • Genome-wide prediction of transcription factor binding sites using an integrated model
    • Won, K.-J., Ren, B. and Wang, W. (2010) Genome-wide prediction of transcription factor binding sites using an integrated model. Genome Biol., 11, R7.
    • (2010) Genome Biol. , vol.11
    • Won, K.-J.1    Ren, B.2    Wang, W.3
  • 34
    • 77955858634 scopus 로고    scopus 로고
    • PriorsEditor: A tool for the creation and use of positional priors in motif discovery
    • Klepper, K. and Drabløs, F. (2010) PriorsEditor: a tool for the creation and use of positional priors in motif discovery. Bioinformatics, 26, 2195-2197.
    • (2010) Bioinformatics , vol.26 , pp. 2195-2197
    • Klepper, K.1    Drabløs, F.2
  • 35
    • 80053179656 scopus 로고    scopus 로고
    • Decoding the genome with an integrative analysis tool: Combinatorial CRM Decoder
    • Kang, K., Kim, J., Chung, J. H. and Lee, D. (2011) Decoding the genome with an integrative analysis tool: Combinatorial CRM Decoder. Nucleic Acids Res., 39, e116.
    • (2011) Nucleic Acids Res. , vol.39
    • Kang, K.1    Kim, J.2    Chung, J.H.3    Lee, D.4
  • 40
    • 0141815478 scopus 로고    scopus 로고
    • Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes
    • Kent, W. J., Baertsch, R., Hinrichs, A., Miller, W. and Haussler, D. (2003) Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. PNAS, 100, 11484-11489.
    • (2003) PNAS , vol.100 , pp. 11484-11489
    • Kent, W.J.1    Baertsch, R.2    Hinrichs, A.3    Miller, W.4    Haussler, D.5
  • 42
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart, J. M., Segal, E., Koller, D. and Kim, S. K. (2003) A gene-coexpression network for global discovery of conserved genetic modules. Science, 302, 249-255.
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 43
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: A flexible suite of utilities for comparing genomic features
    • Quinlan, A. R. and Hall, I. M. (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics, 26, 841-842.
    • (2010) Bioinformatics , vol.26 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 44
    • 78049440475 scopus 로고    scopus 로고
    • Chromatin landscape dictates HSF binding to target DNA elements
    • Guertin, M. J. and Lis, J. T. (2010) Chromatin landscape dictates HSF binding to target DNA elements. PLoS Genet., 6, e1001114.
    • (2010) PLoS Genet. , vol.6
    • Guertin, M.J.1    Lis, J.T.2
  • 46
    • 70449132583 scopus 로고    scopus 로고
    • Combinatorial binding predicts spatio-temporal cis-regulatory activity
    • Zinzen, R. P., Girardot, C., Gagneur, J., Braun, M. and Furlong, E. E. M. (2009) Combinatorial binding predicts spatio-temporal cis-regulatory activity. Nature, 462, 65-70.
    • (2009) Nature , vol.462 , pp. 65-70
    • Zinzen, R.P.1    Girardot, C.2    Gagneur, J.3    Braun, M.4    Furlong, E.E.M.5
  • 48
    • 80055073174 scopus 로고    scopus 로고
    • Zelda binding in the early Drosophila melanogaster embryo marks regions subsequently activated at the maternal-to-zygotic transition
    • Harrison, M. M., Li, X.-Y., Kaplan, T., Botchan, M. R. and Eisen, M. B. (2011) Zelda binding in the early Drosophila melanogaster embryo marks regions subsequently activated at the maternal-to-zygotic transition. PLoS Genet., 7, e1002266.
    • (2011) PLoS Genet. , vol.7
    • Harrison, M.M.1    Li, X.-Y.2    Kaplan, T.3    Botchan, M.R.4    Eisen, M.B.5
  • 49
    • 79251582523 scopus 로고    scopus 로고
    • Whole-genome analysis reveals that active heat shock factor binding sites are mostly associated with non-heat shock genes in Drosophila melanogaster
    • Gonsalves, S. E., Moses, A. M., Razak, Z., Robert, F. and Westwood, J. T. (2011) Whole-genome analysis reveals that active heat shock factor binding sites are mostly associated with non-heat shock genes in Drosophila melanogaster. PLoS One, 6, e15934.
    • (2011) PLoS One , vol.6
    • Gonsalves, S.E.1    Moses, A.M.2    Razak, Z.3    Robert, F.4    Westwood, J.T.5
  • 50
    • 52749097035 scopus 로고    scopus 로고
    • Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules
    • Turatsinze, J.-V., Thomas-Chollier, M., Defrance, M. and van Helden, J. (2008) Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules. Nat. Protoc., 3, 1578-1588.
    • (2008) Nat. Protoc. , vol.3 , pp. 1578-1588
    • Turatsinze, J.-V.1    Thomas-Chollier, M.2    Defrance, M.3    Van Helden, J.4
  • 51
    • 14644445199 scopus 로고    scopus 로고
    • Genetic programs activated by proneural proteins in the developing drosophila PNS
    • Reeves, N. and Posakony, J. W. (2005) Genetic Programs Activated by Proneural Proteins in the Developing Drosophila PNS. Dev. Cell, 8, 413-425.
    • (2005) Dev. Cell , vol.8 , pp. 413-425
    • Reeves, N.1    Posakony, J.W.2
  • 52
    • 79957990336 scopus 로고    scopus 로고
    • Stat is an essential activator of the zygotic genome in the early Drosophila embryo
    • Tsurumi, A., Xia, F., Li, J., Larson, K., Lafrance, R. and Li, W. X. (2011) stat is an essential activator of the zygotic genome in the early Drosophila embryo. PLoS Genet., 7, e1002086.
    • (2011) PLoS Genet. , vol.7
    • Tsurumi, A.1    Xia, F.2    Li, J.3    Larson, K.4    Lafrance, R.5    Li, W.X.6
  • 55
    • 80052461299 scopus 로고    scopus 로고
    • Conservation of transcription factor binding events predicts gene expression across species
    • Hemberg, M. and Kreiman, G. (2011) Conservation of transcription factor binding events predicts gene expression across species. Nucleic Acids Res., 39, 7092-7102.
    • (2011) Nucleic Acids Res. , vol.39 , pp. 7092-7102
    • Hemberg, M.1    Kreiman, G.2
  • 56
    • 56749183626 scopus 로고    scopus 로고
    • The zinc-finger protein Zelda is a key activator of the early zygotic genome in Drosophila
    • Liang, H.-L., Nien, C.-Y., Liu, H.-Y., Metzstein, M. M., Kirov, N. and Rushlow, C. (2008) The zinc-finger protein Zelda is a key activator of the early zygotic genome in Drosophila. Nature, 456, 400-403.
    • (2008) Nature , vol.456 , pp. 400-403
    • Liang, H.-L.1    Nien, C.-Y.2    Liu, H.-Y.3    Metzstein, M.M.4    Kirov, N.5    Rushlow, C.6
  • 57
    • 33646858607 scopus 로고    scopus 로고
    • A temporal map of transcription factor activity: Mef2 directly regulates target genes at all stages of muscle development
    • Sandmann, T., Jensen, L. J., Jakobsen, J. S., Karzynski, M. M., Eichenlaub, M. P., Bork, P. and Furlong, E. E. M. (2006) A temporal map of transcription factor activity: Mef2 directly regulates target genes at all stages of muscle development. Dev. Cell, 10, 797-807.
    • (2006) Dev. Cell , vol.10 , pp. 797-807
    • Sandmann, T.1    Jensen, L.J.2    Jakobsen, J.S.3    Karzynski, M.M.4    Eichenlaub, M.P.5    Bork, P.6    Furlong, E.E.M.7
  • 59
    • 0033828640 scopus 로고    scopus 로고
    • Early development of the Drosophila mushroom body: The roles of eyeless and dachshund
    • Noveen, A., Daniel, A. and Hartenstein, V. (2000) Early development of the Drosophila mushroom body: the roles of eyeless and dachshund. Development, 127, 3475-3488.
    • (2000) Development , vol.127 , pp. 3475-3488
    • Noveen, A.1    Daniel, A.2    Hartenstein, V.3
  • 60
    • 0038198738 scopus 로고    scopus 로고
    • Axon pruning during Drosophila metamorphosis: Evidence for local degeneration and requirement of the ubiquitin-proteasome system
    • Watts, R. J., Hoopfer, E. D. and Luo, L. (2003) Axon pruning during Drosophila metamorphosis: evidence for local degeneration and requirement of the ubiquitin-proteasome system. Neuron, 38, 871-885.
    • (2003) Neuron , vol.38 , pp. 871-885
    • Watts, R.J.1    Hoopfer, E.D.2    Luo, L.3
  • 61
    • 69449105296 scopus 로고    scopus 로고
    • Pattern formation in the Drosophila eye disc
    • Roignant, J.-Y. and Treisman, J. E. (2009) Pattern formation in the Drosophila eye disc. Int. J. Dev. Biol., 53, 795-804.
    • (2009) Int. J. Dev. Biol. , vol.53 , pp. 795-804
    • Roignant, J.-Y.1    Treisman, J.E.2
  • 62
    • 77954759123 scopus 로고    scopus 로고
    • Genetic and genomic dissection of cardiogenesis in the Drosophila model
    • Reim, I. and Frasch, M. (2010) Genetic and genomic dissection of cardiogenesis in the Drosophila model. Pediatr Cardiol, 31, 325-334.
    • (2010) Pediatr Cardiol , vol.31 , pp. 325-334
    • Reim, I.1    Frasch, M.2
  • 64
    • 84856469583 scopus 로고    scopus 로고
    • Computational strategies for the genome-wide identification of cis-regulatory elements and transcriptional targets
    • Aerts, S. (2012) Computational strategies for the genome-wide identification of cis-regulatory elements and transcriptional targets. Curr. Top. Dev. Biol., 98, 121-145.
    • (2012) Curr. Top. Dev. Biol. , vol.98 , pp. 121-145
    • Aerts, S.1
  • 65
    • 69249175210 scopus 로고    scopus 로고
    • Computational methods for the detection of cis-regulatory modules
    • Van Loo, P., Marynen, P. and Loo, P. V. (2009) Computational methods for the detection of cis-regulatory modules. Brief Bioinf., 10, bbp025.
    • (2009) Brief Bioinf. , vol.10
    • Van Loo, P.1    Marynen, P.2    Loo, P.V.3
  • 67
    • 79958090979 scopus 로고    scopus 로고
    • DREME: Motif discovery in transcription factor ChIP-seq data
    • Bailey, T. L. (2011) DREME: motif discovery in transcription factor ChIP-seq data. Bioinformatics, 27, 1653-1659.
    • (2011) Bioinformatics , vol.27 , pp. 1653-1659
    • Bailey, T.L.1
  • 69
    • 0032498230 scopus 로고    scopus 로고
    • The enhanceosome and transcriptional synergy
    • Carey, M. (1998) The enhanceosome and transcriptional synergy. Cell, 92, 5-8.
    • (1998) Cell , vol.92 , pp. 5-8
    • Carey, M.1
  • 71
    • 38549168437 scopus 로고    scopus 로고
    • Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses
    • Li, L., Zhu, Q., He, X., Sinha, S. and Halfon, M. S. (2007) Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses. Genome Biol., 8, R101.
    • (2007) Genome Biol. , vol.8
    • Li, L.1    Zhu, Q.2    He, X.3    Sinha, S.4    Halfon, M.S.5
  • 72
    • 80555142991 scopus 로고    scopus 로고
    • What fraction of the human genome is functional?
    • Ponting, C. P. and Hardison, R. C. (2011) What fraction of the human genome is functional? Genome Res., 21, 1769-1776.
    • (2011) Genome Res. , vol.21 , pp. 1769-1776
    • Ponting, C.P.1    Hardison, R.C.2
  • 73
    • 78651343711 scopus 로고    scopus 로고
    • DroID 2011: A comprehensive, integrated resource for protein, transcription factor, RNA and gene interactions for Drosophila
    • Murali, T., Pacifico, S., Yu, J., Guest, S., Roberts, G. G. and Finley, R. L. (2011) DroID 2011: a comprehensive, integrated resource for protein, transcription factor, RNA and gene interactions for Drosophila. Nucleic Acids Res., 39, D736-D743.
    • (2011) Nucleic Acids Res. , vol.39
    • Murali, T.1    Pacifico, S.2    Yu, J.3    Guest, S.4    Roberts, G.G.5    Finley, R.L.6
  • 75
    • 33846510838 scopus 로고    scopus 로고
    • Large-scale discovery of promoter motifs in Drosophila melanogaster
    • Down, T. A., Bergman, C. M., Su, J. and Hubbard, T. J. P. (2007) Large-scale discovery of promoter motifs in Drosophila melanogaster. PLoS Comp. Biol., 3, e7.
    • (2007) PLoS Comp. Biol. , vol.3
    • Down, T.A.1    Bergman, C.M.2    Su, J.3    Hubbard, T.J.P.4
  • 76
    • 22344437987 scopus 로고    scopus 로고
    • Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach
    • Elemento, O. and Tavazoie, S. (2005) Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach. Genome Biol., 6, R18.
    • (2005) Genome Biol. , vol.6
    • Elemento, O.1    Tavazoie, S.2
  • 81
    • 77950472891 scopus 로고    scopus 로고
    • Hpdi: A database of experimental human protein-DNA interactions
    • Xie, Z., Hu, S., Blackshaw, S., Zhu, H. and Qian, J. (2010) hPDI: a database of experimental human protein-DNA interactions. Bioinformatics, 26, 287-289.
    • (2010) Bioinformatics , vol.26 , pp. 287-289
    • Xie, Z.1    Hu, S.2    Blackshaw, S.3    Zhu, H.4    Qian, J.5
  • 82
    • 84862169505 scopus 로고    scopus 로고
    • YeTFaSCo: A database of evaluated yeast transcription factor sequence specificities
    • de Boer, C. G. and Hughes, T. R. (2012) YeTFaSCo: a database of evaluated yeast transcription factor sequence specificities. Nucleic Acids Res., 40, D169-D179.
    • (2012) Nucleic Acids Res. , vol.40
    • De Boer, C.G.1    Hughes, T.R.2
  • 83
    • 0034007075 scopus 로고    scopus 로고
    • Genetic control of development of the mushroom bodies, the associative learning centers in the Drosophila brain, by the eyeless, twin of eyeless, and Dachshund genes
    • Kurusu, M., Nagao, T., Walldorf, U., Flister, S., Gehring, W. J. and Furukubo-Tokunaga, K. (2000) Genetic control of development of the mushroom bodies, the associative learning centers in the Drosophila brain, by the eyeless, twin of eyeless, and Dachshund genes. Proc. Natl Acad. Sci. USA, 97, 2140-2144.
    • (2000) Proc. Natl Acad. Sci. USA , vol.97 , pp. 2140-2144
    • Kurusu, M.1    Nagao, T.2    Walldorf, U.3    Flister, S.4    Gehring, W.J.5    Furukubo-Tokunaga, K.6


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