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Volumn 451, Issue 7178, 2008, Pages 535-540

Predicting expression patterns from regulatory sequence in Drosophila segmentation

Author keywords

[No Author keywords available]

Indexed keywords

DNA; TRANSCRIPTION FACTOR;

EID: 38749127589     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature06496     Document Type: Article
Times cited : (375)

References (48)
  • 1
    • 0027026855 scopus 로고
    • Transcriptional control by Drosophila gap genes
    • Jackle, H. et al. Transcriptional control by Drosophila gap genes. J. Cell Sci. (suppl.) 16, 39-51 (1992).
    • (1992) J. Cell Sci , vol.16 , Issue.SUPPL. , pp. 39-51
    • Jackle, H.1
  • 2
    • 0034704248 scopus 로고    scopus 로고
    • Genome-wide location and function of DNA binding proteins
    • Ren, B. et al. Genome-wide location and function of DNA binding proteins. Science 290, 2306-2309 (2000).
    • (2000) Science , vol.290 , pp. 2306-2309
    • Ren, B.1
  • 3
    • 12744263842 scopus 로고    scopus 로고
    • Computational identification of developmental enhancers: Conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura
    • Berman, B. P. et al. Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura. Genome Biol. 5, R61 (2004).
    • (2004) Genome Biol , vol.5
    • Berman, B.P.1
  • 4
    • 17044431033 scopus 로고    scopus 로고
    • The role of binding site cluster strength in Bicoid-dependent patterning in Drosophila
    • Ochoa-Espinosa, A. et al. The role of binding site cluster strength in Bicoid-dependent patterning in Drosophila. Proc. Natl Acad. Sci. USA 102, 4960-4965 (2005).
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 4960-4965
    • Ochoa-Espinosa, A.1
  • 5
    • 19344375742 scopus 로고    scopus 로고
    • Transcriptional control in the segmentation gene network of Drosophila
    • Schroeder, M. D. et al. Transcriptional control in the segmentation gene network of Drosophila. PLoS Biol. 2, E271 (2004).
    • (2004) PLoS Biol , vol.2
    • Schroeder, M.D.1
  • 6
    • 15244358503 scopus 로고    scopus 로고
    • Systematic discovery of regulatory motifs in human promoters and 39 UTRs by comparison of several mammals
    • Xie, X. et al. Systematic discovery of regulatory motifs in human promoters and 39 UTRs by comparison of several mammals. Nature 434, 338-345 (2005).
    • (2005) Nature , vol.434 , pp. 338-345
    • Xie, X.1
  • 8
    • 0037686112 scopus 로고    scopus 로고
    • The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster
    • Albert, R. & Othmer, H. G. The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster. J. Theor. Biol. 223, 1-18 (2003).
    • (2003) J. Theor. Biol , vol.223 , pp. 1-18
    • Albert, R.1    Othmer, H.G.2
  • 9
    • 0037941585 scopus 로고    scopus 로고
    • Module networks: Identifying regulatory modules and their condition-specific regulators from gene expression data
    • Segal, E. et al. Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data. Nature Genet. 34, 166-176 (2003).
    • (2003) Nature Genet , vol.34 , pp. 166-176
    • Segal, E.1
  • 10
    • 34548087820 scopus 로고    scopus 로고
    • Explicit equilibrium modeling of transcription-factor binding and gene regulation
    • Granek, J. A. & Clarke, N. D. Explicit equilibrium modeling of transcription-factor binding and gene regulation. Genome Biol. 6, R87 (2005).
    • (2005) Genome Biol , vol.6
    • Granek, J.A.1    Clarke, N.D.2
  • 11
    • 15744387380 scopus 로고    scopus 로고
    • Transcriptional regulation by the numbers: Models
    • Bintu, L. et al. Transcriptional regulation by the numbers: models. Curr. Opin. Genet. Dev. 15, 116-124 (2005).
    • (2005) Curr. Opin. Genet. Dev , vol.15 , pp. 116-124
    • Bintu, L.1
  • 12
    • 33745658106 scopus 로고    scopus 로고
    • Computational models for neurogenic gene expression in the Drosophila embryo
    • Zinzen, R. P., Senger, K., Levine, M. & Papatsenko, D. Computational models for neurogenic gene expression in the Drosophila embryo. Curr. Biol. 16, 1358-1365 (2006).
    • (2006) Curr. Biol , vol.16 , pp. 1358-1365
    • Zinzen, R.P.1    Senger, K.2    Levine, M.3    Papatsenko, D.4
  • 13
    • 0034644270 scopus 로고    scopus 로고
    • The segment polarity network is a robust developmental module
    • von Dassow, G., Meir, E., Munro, E. M. & Odell, G. M. The segment polarity network is a robust developmental module. Nature 406, 188-192 (2000).
    • (2000) Nature , vol.406 , pp. 188-192
    • von Dassow, G.1    Meir, E.2    Munro, E.M.3    Odell, G.M.4
  • 14
    • 0037136555 scopus 로고    scopus 로고
    • Robustness of the BMP morphogen gradient in Drosophila embryonic patterning
    • Eldar, A. et al. Robustness of the BMP morphogen gradient in Drosophila embryonic patterning. Nature 419, 304-308 (2002).
    • (2002) Nature , vol.419 , pp. 304-308
    • Eldar, A.1
  • 15
    • 3142734333 scopus 로고    scopus 로고
    • Dynamic control of positional information in the early Drosophila embryo
    • Jaeger, J. et al. Dynamic control of positional information in the early Drosophila embryo. Nature 430, 368-371 (2004).
    • (2004) Nature , vol.430 , pp. 368-371
    • Jaeger, J.1
  • 16
    • 33749137281 scopus 로고    scopus 로고
    • Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene
    • Janssens, H. et al. Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene. Nature Genet. 38, 1159-1165 (2006).
    • (2006) Nature Genet , vol.38 , pp. 1159-1165
    • Janssens, H.1
  • 18
    • 0030281034 scopus 로고    scopus 로고
    • From gradients to stripes in Drosophila embryogenesis: Filling in the gaps
    • Rivera-Pomar, R. & Jackle, H. From gradients to stripes in Drosophila embryogenesis: filling in the gaps. Trends Genet. 12, 478-483 (1996).
    • (1996) Trends Genet , vol.12 , pp. 478-483
    • Rivera-Pomar, R.1    Jackle, H.2
  • 19
    • 0037881950 scopus 로고    scopus 로고
    • In and out of Torso RTK signalling
    • Furriols, M. & Casanova, J. In and out of Torso RTK signalling. EMBO J. 22, 1947-1952 (2003).
    • (2003) EMBO J , vol.22 , pp. 1947-1952
    • Furriols, M.1    Casanova, J.2
  • 20
    • 0026537051 scopus 로고
    • The origin of pattern and polarity in the Drosophila embryo
    • St Johnston, D. & Nusslein-Volhard, C. The origin of pattern and polarity in the Drosophila embryo. Cell 68, 201-219 (1992).
    • (1992) Cell , vol.68 , pp. 201-219
    • St Johnston, D.1    Nusslein-Volhard, C.2
  • 21
    • 0000133199 scopus 로고
    • Identifying protein-binding sites from unaligned DNA fragments
    • Stormo, G. D. & Hartzell, G. W. III. Identifying protein-binding sites from unaligned DNA fragments. Proc. Natl Acad. Sci. USA 86, 1183-1187 (1989).
    • (1989) Proc. Natl Acad. Sci. USA , vol.86 , pp. 1183-1187
    • Stormo, G.D.1    Hartzell III, G.W.2
  • 22
    • 0035115973 scopus 로고    scopus 로고
    • Registration of the expression patterns of Drosophila segmentation genes by two independent methods
    • Myasnikova, E., Samsonova, A., Kozlov, K., Samsonova, M. & Reinitz, J. Registration of the expression patterns of Drosophila segmentation genes by two independent methods. Bioinformatics 17, 3-12 (2001).
    • (2001) Bioinformatics , vol.17 , pp. 3-12
    • Myasnikova, E.1    Samsonova, A.2    Kozlov, K.3    Samsonova, M.4    Reinitz, J.5
  • 23
    • 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. & Siggia, E. D. Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo. BMC Bioinformatics 3, 30 (2002).
    • (2002) BMC Bioinformatics , vol.3 , pp. 30
    • Rajewsky, N.1    Vergassola, M.2    Gaul, U.3    Siggia, E.D.4
  • 24
    • 0028021851 scopus 로고
    • Synergy between the hunchback and bicoid morphogens is required for anterior patterning in Drosophila
    • Simpson-Brose, M., Treisman, J. & Desplan, C. Synergy between the hunchback and bicoid morphogens is required for anterior patterning in Drosophila. Cell 78, 855-865 (1994).
    • (1994) Cell , vol.78 , pp. 855-865
    • Simpson-Brose, M.1    Treisman, J.2    Desplan, C.3
  • 25
    • 33746691336 scopus 로고    scopus 로고
    • Extensive low-affinity transcriptional interactions in the yeast genome
    • Tanay, A. Extensive low-affinity transcriptional interactions in the yeast genome. Genome Res. 16, 962-972 (2006).
    • (2006) Genome Res , vol.16 , pp. 962-972
    • Tanay, A.1
  • 26
    • 0033559686 scopus 로고    scopus 로고
    • A comparison of in vivo and in vitro DNA-binding specificities suggests a new model for homeoprotein DNA binding in Drosophila embryos
    • Carr, A. & Biggin, M. D. A comparison of in vivo and in vitro DNA-binding specificities suggests a new model for homeoprotein DNA binding in Drosophila embryos. EMBO J. 18, 1598-1608 (1999).
    • (1999) EMBO J , vol.18 , pp. 1598-1608
    • Carr, A.1    Biggin, M.D.2
  • 27
    • 0034759033 scopus 로고    scopus 로고
    • Transcriptional regulation in Drosophila: The post-genome challenge
    • Biggin, M. D. & Tjian, R. Transcriptional regulation in Drosophila: the post-genome challenge. Funct. Integr. Genomics 1, 223-234 (2001).
    • (2001) Funct. Integr. Genomics , vol.1 , pp. 223-234
    • Biggin, M.D.1    Tjian, R.2
  • 28
    • 2942718723 scopus 로고    scopus 로고
    • Control of stochasticity in eukaryotic gene expression
    • Raser, J. M. & O'Shea, E. K. Control of stochasticity in eukaryotic gene expression. Science 304, 1811-1814 (2004).
    • (2004) Science , vol.304 , pp. 1811-1814
    • Raser, J.M.1    O'Shea, E.K.2
  • 29
    • 0004211673 scopus 로고    scopus 로고
    • Cold Spring Harbor Laboratory Press, Cold Spring Harbor
    • Ptashne, M. & Gann, A. Genes and Signals 26-37 (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, 2002).
    • (2002) Genes and Signals , pp. 26-37
    • Ptashne, M.1    Gann, A.2
  • 30
    • 27644547453 scopus 로고    scopus 로고
    • Bicoid determines sharp and precise target gene expression in the Drosophila embryo
    • Crauk, O. & Dostatni, N. Bicoid determines sharp and precise target gene expression in the Drosophila embryo. Curr. Biol. 15, 1888-1898 (2005).
    • (2005) Curr. Biol , vol.15 , pp. 1888-1898
    • Crauk, O.1    Dostatni, N.2
  • 31
    • 24944522339 scopus 로고    scopus 로고
    • Bicoid cooperative DNA binding is critical for embryonic patterning in Drosophila
    • Lebrecht, D. et al. Bicoid cooperative DNA binding is critical for embryonic patterning in Drosophila. Proc. Natl Acad. Sci. USA 102, 13176-13181 (2005).
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 13176-13181
    • Lebrecht, D.1
  • 32
    • 33747500567 scopus 로고    scopus 로고
    • A genomic code for nucleosome positioning
    • Segal, E. et al. A genomic code for nucleosome positioning. Nature 442, 772-778 (2006).
    • (2006) Nature , vol.442 , pp. 772-778
    • Segal, E.1
  • 33
    • 0032499071 scopus 로고    scopus 로고
    • Evidence for two modes of cooperative DNA binding in vivo that do not involve direct protein-protein interactions
    • Vashee, S., Melcher, K., Ding, W. V., Johnston, S. A. & Kodadek, T. Evidence for two modes of cooperative DNA binding in vivo that do not involve direct protein-protein interactions. Curr. Biol. 8, 452-458 (1998).
    • (1998) Curr. Biol , vol.8 , pp. 452-458
    • Vashee, S.1    Melcher, K.2    Ding, W.V.3    Johnston, S.A.4    Kodadek, T.5
  • 34
    • 0025861602 scopus 로고
    • Gene expression mediated by cis-acting sequences of the Krüppel gene in response to the Drosophila morphogens bicoid and hunchback
    • Hoch, M., Seifert, E. & Jackle, H. Gene expression mediated by cis-acting sequences of the Krüppel gene in response to the Drosophila morphogens bicoid and hunchback. EMBO J. 10, 2267-2278 (1991).
    • (1991) EMBO J , vol.10 , pp. 2267-2278
    • Hoch, M.1    Seifert, E.2    Jackle, H.3
  • 35
    • 0025865166 scopus 로고
    • Transcriptional regulation of a pair-rule stripe in Drosophila
    • Small, S., Kraut, R., Hoey, T., Warrior, R. & Levine, M. Transcriptional regulation of a pair-rule stripe in Drosophila. Genes Dev. 5, 827-839 (1991).
    • (1991) Genes Dev , vol.5 , pp. 827-839
    • Small, S.1    Kraut, R.2    Hoey, T.3    Warrior, R.4    Levine, M.5
  • 36
    • 0029015420 scopus 로고
    • Activation of posterior gap gene expression in the Drosophila blastoderm
    • Rivera-Pomar, R., Lu, X., Perrimon, N., Taubert, H. & Jackle, H. Activation of posterior gap gene expression in the Drosophila blastoderm. Nature 376, 253-256 (1995).
    • (1995) Nature , vol.376 , pp. 253-256
    • Rivera-Pomar, R.1    Lu, X.2    Perrimon, N.3    Taubert, H.4    Jackle, H.5
  • 37
    • 0030030902 scopus 로고    scopus 로고
    • The eve stripe 2 enhancer employs multiple modes of transcriptional synergy
    • Arnosti, D. N., Barolo, S., Levine, M. & Small, S. The eve stripe 2 enhancer employs multiple modes of transcriptional synergy. Development 122, 205-214 (1996).
    • (1996) Development , vol.122 , pp. 205-214
    • Arnosti, D.N.1    Barolo, S.2    Levine, M.3    Small, S.4
  • 38
    • 0029112981 scopus 로고
    • Heterodimeric Drosophila gap gene protein complexes acting as transcriptional repressors
    • Sauer, F. & Jackle, H. Heterodimeric Drosophila gap gene protein complexes acting as transcriptional repressors. EMBO J. 14, 4773-4780 (1995).
    • (1995) EMBO J , vol.14 , pp. 4773-4780
    • Sauer, F.1    Jackle, H.2
  • 39
    • 0343247787 scopus 로고    scopus 로고
    • Mechanism and Bicoid-dependent control of hairy stripe 7 expression in the posterior region of the Drosophila embryo
    • La Rosee, A., Hader, T., Taubert, H., Rivera-Pomar, R. & Jackle, H. Mechanism and Bicoid-dependent control of hairy stripe 7 expression in the posterior region of the Drosophila embryo. EMBO J. 16, 4403-4411 (1997).
    • (1997) EMBO J , vol.16 , pp. 4403-4411
    • La Rosee, A.1    Hader, T.2    Taubert, H.3    Rivera-Pomar, R.4    Jackle, H.5
  • 40
    • 0028051349 scopus 로고
    • Positioning adjacent pair-rule stripes in the posterior Drosophila embryo
    • Langeland, J. A., Attai, S. F., Vorwerk, K. & Carroll, S. B. Positioning adjacent pair-rule stripes in the posterior Drosophila embryo. Development 120, 2945-2955 (1994).
    • (1994) Development , vol.120 , pp. 2945-2955
    • Langeland, J.A.1    Attai, S.F.2    Vorwerk, K.3    Carroll, S.B.4
  • 41
    • 0022511960 scopus 로고    scopus 로고
    • Meinhardt, H. Hierarchical inductions of cell states: a model for segmentation in Drosophila. J. Cell Sci. (Suppl.) 4, 357-381 (1986).
    • Meinhardt, H. Hierarchical inductions of cell states: a model for segmentation in Drosophila. J. Cell Sci. (Suppl.) 4, 357-381 (1986).
  • 42
    • 0023679744 scopus 로고
    • The bicoid protein determines position in the Drosophila embryo in a concentration-dependent manner
    • Driever, W. & Nusslein-Volhard, C. The bicoid protein determines position in the Drosophila embryo in a concentration-dependent manner. Cell 54, 95-104 (1988).
    • (1988) Cell , vol.54 , pp. 95-104
    • Driever, W.1    Nusslein-Volhard, C.2
  • 43
    • 0842303319 scopus 로고    scopus 로고
    • Seeing is believing: The bicoid morphogen gradient matures
    • Ephrussi, A. & St Johnston, D. Seeing is believing: the bicoid morphogen gradient matures. Cell 116, 143-152 (2004).
    • (2004) Cell , vol.116 , pp. 143-152
    • Ephrussi, A.1    St Johnston, D.2
  • 44
    • 0026548857 scopus 로고
    • Competition for overlapping sites in the regulatory region of the Drosophila gene
    • Hoch, M., Gerwin, N., Taubert, H. & Jackle, H. Competition for overlapping sites in the regulatory region of the Drosophila gene Kruppel. Science 256, 94-97 (1992).
    • (1992) Kruppel. Science , vol.256 , pp. 94-97
    • Hoch, M.1    Gerwin, N.2    Taubert, H.3    Jackle, H.4
  • 45
    • 0026355632 scopus 로고
    • Regulation of a segmentation stripe by overlapping activators and repressors in the Drosophila embryo
    • Stanojevic, D., Small, S. & Levine, M. Regulation of a segmentation stripe by overlapping activators and repressors in the Drosophila embryo. Science 254, 1385-1387 (1991).
    • (1991) Science , vol.254 , pp. 1385-1387
    • Stanojevic, D.1    Small, S.2    Levine, M.3
  • 46
    • 2942750116 scopus 로고    scopus 로고
    • CtBP contributes quantitatively to Knirps repression activity in an NAD binding-dependent manner
    • Sutrias-Grau, M. & Arnosti, D. N. CtBP contributes quantitatively to Knirps repression activity in an NAD binding-dependent manner. Mol. Cell. Biol. 24, 5953-5966 (2004).
    • (2004) Mol. Cell. Biol , vol.24 , pp. 5953-5966
    • Sutrias-Grau, M.1    Arnosti, D.N.2
  • 47
    • 0029916318 scopus 로고    scopus 로고
    • Short-range transcriptional repressors mediate both quenching and direct repression within complex loci in Drosophila
    • Gray, S. & Levine, M. Short-range transcriptional repressors mediate both quenching and direct repression within complex loci in Drosophila. Genes Dev. 10, 700-710 (1996).
    • (1996) Genes Dev , vol.10 , pp. 700-710
    • Gray, S.1    Levine, M.2
  • 48
    • 0030010704 scopus 로고    scopus 로고
    • The gap protein knirps mediates both quenching and direct repression in the Drosophila embryo
    • Arnosti, D. N., Gray, S., Barolo, S., Zhou, J. & Levine, M. The gap protein knirps mediates both quenching and direct repression in the Drosophila embryo. EMBO J. 15, 3659-3666 (1996).
    • (1996) EMBO J , vol.15 , pp. 3659-3666
    • Arnosti, D.N.1    Gray, S.2    Barolo, S.3    Zhou, J.4    Levine, M.5


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