메뉴 건너뛰기




Volumn 31, Issue 15, 2012, Pages 3323-3333

The cis-regulatory code of Hox function in Drosophila

Author keywords

ChIP seq; Deformed; Drosophila; Hox; transcriptional gene regulation

Indexed keywords

MYOCYTE ENHANCER FACTOR 2;

EID: 84864875061     PISSN: 02614189     EISSN: 14602075     Source Type: Journal    
DOI: 10.1038/emboj.2012.179     Document Type: Article
Times cited : (37)

References (59)
  • 2
    • 0030986188 scopus 로고    scopus 로고
    • The hardwiring of development: Organization and function of genomic regulatory systems
    • Arnone MI, Davidson EH (1997) The hardwiring of development: organization and function of genomic regulatory systems. Development 124: 1851-1864
    • (1997) Development , vol.124 , pp. 1851-1864
    • Arnone, M.I.1    Davidson, E.H.2
  • 3
    • 17444402501 scopus 로고    scopus 로고
    • Drosophila DNase i footprint database: A systematic genome annotation of transcription factor binding sites in the fruitfly
    • Bergman CM, Carlson JW, Celniker SE (2005) Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster. Bioinformatics 21: 1747-1749
    • (2005) Drosophila Melanogaster. Bioinformatics , vol.21 , pp. 1747-1749
    • Bergman, C.M.1    Carlson, J.W.2    Celniker, S.E.3
  • 4
    • 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 BP, Pfeiffer BD, Laverty TR, Salzberg SL, Rubin GM, Eisen MB, Celniker SE (2004) 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) Genome Biol , vol.5
    • Berman, B.P.1    Pfeiffer, B.D.2    Laverty, T.R.3    Salzberg, S.L.4    Rubin, G.M.5    Eisen, M.B.6    Celniker, S.E.7
  • 5
    • 77954713658 scopus 로고    scopus 로고
    • Vectors for efficient and high-throughput construction of fluorescent Drosophila reporters using the PhiC31 site-specific integration system
    • Boy AL, Zhai Z, Habring-Muller A, Kussler-Schneider Y, Kaspar P, Lohmann I (2010) Vectors for efficient and high-throughput construction of fluorescent Drosophila reporters using the PhiC31 site-specific integration system. Genesis 48: 452-456
    • (2010) Genesis , vol.48 , pp. 452-456
    • Boy, A.L.1    Zhai, Z.2    Habring-Muller, A.3    Kussler-Schneider, Y.4    Kaspar, P.5    Lohmann, I.6
  • 6
    • 0036333329 scopus 로고    scopus 로고
    • Abdominal A specifies one cell type in Drosophila by regulating one principal target gene
    • Brodu V, Elstob PR, Gould AP (2002) Abdominal A specifies one cell type in Drosophila by regulating one principal target gene. Development 129: 2957-2963
    • (2002) Development , vol.129 , pp. 2957-2963
    • Brodu, V.1    Elstob, P.R.2    Gould, A.P.3
  • 7
    • 0027966927 scopus 로고
    • The DNA binding specificity of Ultrabithorax is modulated by cooperative interactions with extradenticle, another homeoprotein
    • Chan SK, Jaffe L, Capovilla M, Botas J, Mann RS (1994) The DNA binding specificity of Ultrabithorax is modulated by cooperative interactions with extradenticle, another homeoprotein. Cell 78: 603-615
    • (1994) Cell , vol.78 , pp. 603-615
    • Chan, S.K.1    Jaffe, L.2    Capovilla, M.3    Botas, J.4    Mann, R.S.5
  • 8
    • 25444445232 scopus 로고    scopus 로고
    • Stimulation of GCMa transcriptional activity by cyclic AMP/protein kinase A signaling is attributed to CBP-mediated acetylation of GCMa
    • Chang CW, Chuang HC, Yu C, Yao TP, Chen H (2005) Stimulation of GCMa transcriptional activity by cyclic AMP/protein kinase A signaling is attributed to CBP-mediated acetylation of GCMa. Mol Cell Biol 25: 8401-8414
    • (2005) Mol Cell Biol , vol.25 , pp. 8401-8414
    • Chang, C.W.1    Chuang, H.C.2    Yu, C.3    Yao, T.P.4    Chen, H.5
  • 9
    • 38449104055 scopus 로고    scopus 로고
    • Learning position weight matrices from sequence and expression data
    • Chen X, Guo L, Fan Z, Jiang T (2007) Learning position weight matrices from sequence and expression data. Comput Syst Bioinformatics Conf 6: 249-260
    • (2007) Comput Syst Bioinformatics Conf , vol.6 , pp. 249-260
    • Chen, X.1    Guo, L.2    Fan, Z.3    Jiang, T.4
  • 10
    • 70349545897 scopus 로고    scopus 로고
    • A tumor suppressor activity of Drosophila Polycomb genes mediated by JAK-STAT signaling
    • Classen AK, Bunker BD, Harvey KF, Vaccari T, Bilder D (2009) A tumor suppressor activity of Drosophila Polycomb genes mediated by JAK-STAT signaling. Nat Genet 41: 1150-1155
    • (2009) Nat Genet , vol.41 , pp. 1150-1155
    • Classen, A.K.1    Bunker, B.D.2    Harvey, K.F.3    Vaccari, T.4    Bilder, D.5
  • 11
    • 38949202286 scopus 로고    scopus 로고
    • Common functions of central and posterior Hox genes for the repression of head in the trunk of Drosophila
    • Coiffier D, Charroux B, Kerridge S (2008) Common functions of central and posterior Hox genes for the repression of head in the trunk of Drosophila. Development 135: 291-300
    • (2008) Development , vol.135 , pp. 291-300
    • Coiffier, D.1    Charroux, B.2    Kerridge, S.3
  • 13
    • 0027936793 scopus 로고
    • The degree of variation in DNA sequence recognition among four Drosophila homeotic proteins
    • Ekker SC, Jackson DG, von Kessler DP, Sun BI, Young KE, Beachy PA (1994) The degree of variation in DNA sequence recognition among four Drosophila homeotic proteins. EMBO J 13: 3551-3560
    • (1994) EMBO J , vol.13 , pp. 3551-3560
    • Ekker, S.C.1    Jackson, D.G.2    Von Kessler, D.P.3    Sun, B.I.4    Young, K.E.5    Beachy, P.A.6
  • 14
    • 0026660342 scopus 로고
    • Differential DNA sequence recognition is a determinant of specificity in homeotic gene action
    • Ekker SC, von Kessler DP, Beachy PA (1992) Differential DNA sequence recognition is a determinant of specificity in homeotic gene action. EMBO J 11: 4059-4072
    • (1992) EMBO J , vol.11 , pp. 4059-4072
    • Ekker, S.C.1    Von Kessler, D.P.2    Beachy, P.A.3
  • 16
    • 0031790019 scopus 로고    scopus 로고
    • A genetic screen of the Drosophila X chromosome for mutations that modify Deformed function
    • Florence B, McGinnisW(1998) A genetic screen of the Drosophila X chromosome for mutations that modify Deformed function. Genetics 150: 1497-1511
    • (1998) Genetics , vol.150 , pp. 1497-1511
    • Florence, B.1    McGinnis, W.2
  • 17
    • 0034707076 scopus 로고    scopus 로고
    • Developmental biology. Control by combinatorial codes
    • Ghazi A, VijayRaghavan KV (2000) Developmental biology. Control by combinatorial codes. Nature 408: 419-420
    • (2000) Nature , vol.408 , pp. 419-420
    • Ghazi, A.1    Vijayraghavan, K.V.2
  • 20
    • 0031020323 scopus 로고    scopus 로고
    • Ladybird a tandem of homeobox genes that maintain late wingless expression in terminal and dorsal epidermis of the Drosophila embryo
    • Jagla K, Jagla T, Heitzler P, Dretzen G, Bellard F, Bellard M (1997) ladybird, a tandem of homeobox genes that maintain late wingless expression in terminal and dorsal epidermis of the Drosophila embryo. Development 124: 91-100
    • (1997) Development , vol.124 , pp. 91-100
    • Jagla, K.1    Jagla, T.2    Heitzler, P.3    Dretzen, G.4    Bellard, F.5    Bellard, M.6
  • 21
    • 77954854598 scopus 로고    scopus 로고
    • Dissecting the functional specificities of two Hox proteins
    • Joshi R, Sun L, Mann R (2010) Dissecting the functional specificities of two Hox proteins. Genes Dev 24: 1533-1545
    • (2010) Genes Dev , vol.24 , pp. 1533-1545
    • Joshi, R.1    Sun, L.2    Mann, R.3
  • 22
    • 4143098311 scopus 로고    scopus 로고
    • CBP and p300: HATs for different occasions
    • Kalkhoven E (2004) CBP and p300: HATs for different occasions. Biochem Pharmacol 68: 1145-1155
    • (2004) Biochem Pharmacol , vol.68 , pp. 1145-1155
    • Kalkhoven, E.1
  • 24
    • 25844436515 scopus 로고    scopus 로고
    • Fly SIX-type homeodomain proteins Sine oculis and Optix partner with different cofactors during eye development
    • Kenyon KL, Li DJ, Clouser C, Tran S, Pignoni F (2005) Fly SIX-type homeodomain proteins Sine oculis and Optix partner with different cofactors during eye development. Dev Dyn 234: 497-504
    • (2005) Dev Dyn , vol.234 , pp. 497-504
    • Kenyon, K.L.1    Li, D.J.2    Clouser, C.3    Tran, S.4    Pignoni, F.5
  • 26
    • 33847076849 scopus 로고    scopus 로고
    • Chromatin modifications and their function
    • Kouzarides T (2007) Chromatin modifications and their function. Cell 128: 693-705
    • (2007) Cell , vol.128 , pp. 693-705
    • Kouzarides, T.1
  • 27
    • 0024277945 scopus 로고
    • Autoregulation of a Drosophila homeotic selector gene
    • Kuziora MA, McGinnis W (1988) Autoregulation of a Drosophila homeotic selector gene. Cell 55: 477-485
    • (1988) Cell , vol.55 , pp. 477-485
    • Kuziora, M.A.1    McGinnis, W.2
  • 29
    • 78651273126 scopus 로고    scopus 로고
    • Hormone receptor-like in 96 and Broad-Complex modulate phenobarbital induced transcription of cytochrome P450 CYP6D1 in Drosophila S2 cells
    • Lin GG, Kozaki T, Scott JG (2011) Hormone receptor-like in 96 and Broad-Complex modulate phenobarbital induced transcription of cytochrome P450 CYP6D1 in Drosophila S2 cells. Insect Mol Biol 20: 87-95
    • (2011) Insect Mol Biol , vol.20 , pp. 87-95
    • Lin, G.G.1    Kozaki, T.2    Scott, J.G.3
  • 30
    • 0036324753 scopus 로고    scopus 로고
    • An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments
    • Liu XS, Brutlag DL, Liu JS (2002) An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments. Nat Biotechnol 20: 835-839
    • (2002) Nat Biotechnol , vol.20 , pp. 835-839
    • Liu, X.S.1    Brutlag, D.L.2    Liu, J.S.3
  • 31
    • 0035710746 scopus 로고    scopus 로고
    • Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method
    • Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 25: 402-408
    • (2001) Methods , vol.25 , pp. 402-408
    • Livak, K.J.1    Schmittgen, T.D.2
  • 32
    • 0037162712 scopus 로고    scopus 로고
    • The Drosophila Hox gene deformed sculpts head morphology via direct regulation of the apoptosis activator reaper
    • Lohmann I, McGinnis N, Bodmer M, McGinnis W (2002) The Drosophila Hox gene deformed sculpts head morphology via direct regulation of the apoptosis activator reaper. Cell 110: 457-466
    • (2002) Cell , vol.110 , pp. 457-466
    • Lohmann, I.1    McGinnis, N.2    Bodmer, M.3    McGinnis, W.4
  • 33
    • 0037031332 scopus 로고    scopus 로고
    • Hox Genes: It's all a matter of context
    • Lohmann I, McGinnis W (2002) Hox Genes: it's all a matter of context. Curr Biol 12: R514-R516
    • (2002) Curr Biol , vol.12
    • Lohmann, I.1    McGinnis, W.2
  • 34
    • 0344442419 scopus 로고    scopus 로고
    • Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information
    • Makeev VJ, Lifanov AP, Nazina AG, Papatsenko DA (2003) Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information. Nucleic Acids Res 31: 6016-6026
    • (2003) Nucleic Acids Res , vol.31 , pp. 6016-6026
    • Makeev, V.J.1    Lifanov, A.P.2    Nazina, A.G.3    Papatsenko, D.A.4
  • 35
    • 0036777881 scopus 로고    scopus 로고
    • Molecular mechanisms of selector gene function and evolution
    • Mann RS, Carroll SB (2002) Molecular mechanisms of selector gene function and evolution. Curr Opin Genet Dev 12: 592-600
    • (2002) Curr Opin Genet Dev , vol.12 , pp. 592-600
    • Mann, R.S.1    Carroll, S.B.2
  • 36
    • 0026504525 scopus 로고
    • Homeobox genes and axial patterning
    • McGinnis W, Krumlauf R (1992) Homeobox genes and axial patterning. Cell 68: 283-302
    • (1992) Cell , vol.68 , pp. 283-302
    • McGinnis, W.1    Krumlauf, R.2
  • 37
    • 23644434573 scopus 로고    scopus 로고
    • Getting a molecular grasp on Hox contextual activity
    • Merabet S, Pradel J, Graba Y (2005) Getting a molecular grasp on Hox contextual activity. Trends Genet 21: 477-480
    • (2005) Trends Genet , vol.21 , pp. 477-480
    • Merabet, S.1    Pradel, J.2    Graba, Y.3
  • 39
    • 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 3rd GG, Finley Jr RL (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 Iii, G.G.5    Finley Jr., R.L.6
  • 40
    • 0028722641 scopus 로고
    • Imaging neuronal subsets and other cell types in whole-mount Drosophila embryos and larvae using antibody probes
    • Patel NH (1994) Imaging neuronal subsets and other cell types in whole-mount Drosophila embryos and larvae using antibody probes. Methods Cell Biol 44: 445-487
    • (1994) Methods Cell Biol , vol.44 , pp. 445-487
    • Patel, N.H.1
  • 41
    • 28944438404 scopus 로고    scopus 로고
    • Modulating Hox gene functions during animal body patterning
    • Pearson JC, Lemons D, McGinnis W (2005) Modulating Hox gene functions during animal body patterning. Nat Rev Genet 6: 893-904
    • (2005) Nat Rev Genet , vol.6 , pp. 893-904
    • Pearson, J.C.1    Lemons, D.2    McGinnis, W.3
  • 44
    • 0000697722 scopus 로고
    • Developmental and molecular analysis of Deformed; A homeotic gene controlling Drosophila head development
    • Regulski M, McGinnis N, Chadwick R, McGinnis W (1987) Developmental and molecular analysis of Deformed; a homeotic gene controlling Drosophila head development. EMBO J 6: 767-777
    • (1987) EMBO J , vol.6 , pp. 767-777
    • Regulski, M.1    McGinnis, N.2    Chadwick, R.3    McGinnis, W.4
  • 46
    • 34548855933 scopus 로고    scopus 로고
    • ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos
    • Sandmann T, Jakobsen JS, Furlong EE (2006) ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos. Nat Protoc 1: 2839-2855
    • (2006) Nat Protoc , vol.1 , pp. 2839-2855
    • Sandmann, T.1    Jakobsen, J.S.2    Furlong, E.E.3
  • 47
    • 72449171924 scopus 로고    scopus 로고
    • Neural stem cell transcriptional networks highlight genes essential for nervous system development
    • Southall TD, Brand AH (2009) Neural stem cell transcriptional networks highlight genes essential for nervous system development. EMBO J 28: 3799-3807
    • (2009) EMBO J , vol.28 , pp. 3799-3807
    • Southall, T.D.1    Brand, A.H.2
  • 49
    • 0024319520 scopus 로고
    • A non-radioactive in situ hybridization method for the localization of specific RNAs in Drosophila embryos reveals translational control of the segmentation gene hunchback
    • Tautz D, Pfeifle C (1989) A non-radioactive in situ hybridization method for the localization of specific RNAs in Drosophila embryos reveals translational control of the segmentation gene hunchback. Chromosoma 98: 81-85
    • (1989) Chromosoma , vol.98 , pp. 81-85
    • Tautz, D.1    Pfeifle, C.2
  • 51
    • 29644440598 scopus 로고    scopus 로고
    • Evolutionarily conserved domains required for activation and repression functions of the Drosophila Hox protein Ultrabithorax
    • Tour E, Hittinger CT, McGinnis W (2005) Evolutionarily conserved domains required for activation and repression functions of the Drosophila Hox protein Ultrabithorax. Development 132: 5271-5281
    • (2005) Development , vol.132 , pp. 5271-5281
    • Tour, E.1    Hittinger, C.T.2    McGinnis, W.3
  • 53
    • 0026581289 scopus 로고
    • Empty spiracles, a gap gene containing a homeobox involved in Drosophila head development
    • Walldorf U, Gehring WJ (1992) Empty spiracles, a gap gene containing a homeobox involved in Drosophila head development. EMBO J 11: 2247-2259
    • (1992) EMBO J , vol.11 , pp. 2247-2259
    • Walldorf, U.1    Gehring, W.J.2
  • 54
    • 35348950692 scopus 로고    scopus 로고
    • Collaboration between Smads and a Hox protein in target gene repression
    • Walsh CM, Carroll SB (2007) Collaboration between Smads and a Hox protein in target gene repression. Development 134: 3585-3592
    • (2007) Development , vol.134 , pp. 3585-3592
    • Walsh, C.M.1    Carroll, S.B.2
  • 55
    • 1842584947 scopus 로고    scopus 로고
    • Applied bioinformatics for the identification of regulatory elements
    • Wasserman WW, Sandelin A (2004) Applied bioinformatics for the identification of regulatory elements. Nat Rev Genet 5: 276-287
    • (2004) Nat Rev Genet , vol.5 , pp. 276-287
    • Wasserman, W.W.1    Sandelin, A.2
  • 56
    • 0036024955 scopus 로고    scopus 로고
    • Identification of unknown target genes of human transcription factors using chromatin immunoprecipitation
    • Weinmann AS, Farnham PJ (2002) Identification of unknown target genes of human transcription factors using chromatin immunoprecipitation. Methods 26: 37-47
    • (2002) Methods , vol.26 , pp. 37-47
    • Weinmann, A.S.1    Farnham, P.J.2
  • 57
    • 0035860090 scopus 로고    scopus 로고
    • RNA interference of gene expression (RNAi) in cultured Drosophila cells
    • Worby CA, Simonson-Leff N, Dixon JE (2001) RNA interference of gene expression (RNAi) in cultured Drosophila cells. Sci STKE 2001: pl1
    • (2001) Sci STKE , vol.2001
    • Worby, C.A.1    Simonson-Leff, N.2    Dixon, J.E.3
  • 58
    • 0024996768 scopus 로고
    • Potent and specific inhibition of mammalian histone deacetylase both in vivo and in vitro by trichostatin A
    • Yoshida M, Kijima M, Akita M, Beppu T (1990) Potent and specific inhibition of mammalian histone deacetylase both in vivo and in vitro by trichostatin A. J Biol Chem 265: 17174-17179
    • (1990) J Biol Chem , vol.265 , pp. 17174-17179
    • Yoshida, M.1    Kijima, M.2    Akita, M.3    Beppu, T.4
  • 59
    • 70449132583 scopus 로고    scopus 로고
    • Combinatorial binding predicts spatio-temporal cis-regulatory activity
    • Zinzen RP, Girardot C, Gagneur J, Braun M, Furlong EE (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.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.