TY - JOUR AU - Wray, G. A. AU - Hahn, M. W. AU - Abouheif, E. AU - Balhoff, J. P. AU - Pizer, M. AU - Rockman, M. V. AU - Romano, L. A. PY - 2003 DA - 2003// TI - The evolution of transcriptional regulation in eukaryotes. JO - Mol Biol Evol VL - 20 ID - Wray2003 ER - TY - JOUR AU - Levine, M. AU - Davidson, E. H. PY - 2005 DA - 2005// TI - Gene regulatory networks for development. JO - Proc Natl Acad Sci USA VL - 102 ID - Levine2005 ER - TY - JOUR AU - Istrail, S. AU - Davidson, E. H. PY - 2005 DA - 2005// TI - Logic functions of the genomic cis-regulatory code. JO - Proc Natl Acad Sci USA VL - 102 ID - Istrail2005 ER - TY - JOUR AU - Ip, Y. T. AU - Levine, M. AU - Bier, E. PY - 1994 DA - 1994// TI - Neurogenic expression of snailis controlled by separable CNS and PNS promoter elements. JO - Development VL - 120 ID - Ip1994 ER - TY - JOUR AU - Emery, J. F. AU - Bier, E. PY - 1995 DA - 1995// TI - Specificity of CNS and PNS regulatory subelements comprising pan-neural enhancers of the deadpan and scratchgenes is achieved by repression. JO - Development VL - 121 ID - Emery1995 ER - TY - JOUR AU - Wasserman, W. W. AU - Palumbo, M. AU - Thompson, W. AU - Fickett, J. W. AU - Lawrence, C. E. PY - 2000 DA - 2000// TI - Human-mouse genome comparisons to locate regulatory sites. JO - Nat Genet VL - 26 ID - Wasserman2000 ER - TY - JOUR AU - Yuh, C. H. AU - Brown, C. T. AU - Livi, C. B. AU - Rowen, L. AU - Clarke, P. J. AU - Davidson, E. H. PY - 2002 DA - 2002// TI - Patchy interspecific sequence similarities efficiently identify positive cis-regulatory elements in the sea urchin. JO - Dev Biol VL - 246 ID - Yuh2002 ER - TY - JOUR AU - Berezikov, E. AU - Guryev, V. AU - Plasterk, R. H. AU - Cuppen, E. PY - 2004 DA - 2004// TI - CONREAL: conserved regulatory elements anchored alignment algorithm for identification of transcription factor binding sites by phylogenetic footprinting. JO - Genome Res VL - 14 ID - Berezikov2004 ER - TY - JOUR AU - Odenwald, W. F. AU - Rasband, W. AU - Kuzin, A. AU - Brody, T. PY - 2005 DA - 2005// TI - EVOPRINTER, a multigenomic comparative tool for rapid identification of functionally important DNA. JO - Proc Natl Acad Sci USA VL - 102 ID - Odenwald2005 ER - TY - JOUR AU - Hoch, M. AU - Schröder, C. AU - Seifert, E. AU - Jäckle, H. PY - 1990 DA - 1990// TI - cis-acting control elements for Krüppel expression in the Drosophilaembryo. JO - EMBO J VL - 9 ID - Hoch1990 ER - TY - JOUR AU - Hoch, M. AU - Seifert, E. AU - Jackle, H. PY - 1991 DA - 1991// TI - Gene expression mediated by cis-acting sequences of the Kruppel gene in response to the Drosophila morphogens bicoid and hunchback. JO - EMBO J VL - 10 ID - Hoch1991 ER - TY - JOUR AU - Hoch, M. AU - Gerwin, N. AU - Taubert, H. AU - Jackle, H. PY - 1992 DA - 1992// TI - Competition for overlapping sites in the regulatory region of the Drosophila gene Kruppel. JO - Science VL - 256 ID - Hoch1992 ER - TY - JOUR AU - Prabhakar, S. AU - Poulin, F. AU - Shoukry, M. AU - Afzal, V. AU - Rubin, E. M. AU - Couronne, O. AU - Pennacchio, L. A. PY - 2006 DA - 2006// TI - Close sequence comparisons are sufficient to identify human cis-regulatory elements. JO - Genome Res VL - 16 ID - Prabhakar2006 ER - TY - JOUR AU - Kent, W. J. PY - 2002 DA - 2002// TI - BLAT - the BLAST-like alignment tool. JO - Genome Res VL - 12 ID - Kent2002 ER - TY - JOUR AU - Gallo, S. M. AU - Li, L. AU - Hu, Z. AU - Halfon, M. S. PY - 2006 DA - 2006// TI - REDfly: a regulatory element database for Drosophila. JO - Bioinformatics VL - 22 ID - Gallo2006 ER - TY - JOUR AU - Adachi, Y. AU - Hauck, B. AU - Clements, J. AU - Kawauchi, H. AU - Kurusu, M. AU - Totani, Y. AU - Kang, Y. Y. AU - Eggert, T. AU - Walldorf, U. AU - Furukubo-Tokunaga, K. AU - Callaerts, P. PY - 2003 DA - 2003// TI - Conserved cis-regulatory modules mediate complex neural expression patterns of the eyeless gene in the Drosophilabrain. JO - Mech Dev VL - 120 ID - Adachi2003 ER - TY - JOUR AU - Riddihough, G. AU - Ish-Horowicz, D. PY - 1991 DA - 1991// TI - Individual stripe regulatory elements in the Drosophilahairy promoter respond to maternal, gap, and pair-rule genes. JO - Genes Dev VL - 5 ID - Riddihough1991 ER - TY - JOUR AU - Fujioka, M. AU - Emi-Sarker, Y. AU - Yusibova, G. L. AU - Goto, T. AU - Jaynes, J. B. PY - 1999 DA - 1999// TI - Analysis of an even-skippedrescue transgene reveals both composite and discrete neuronal and early blastoderm enhancers, and multi-stripe positioning by gap gene repressor gradients. JO - Development VL - 126 ID - Fujioka1999 ER - TY - JOUR AU - Schröder, C. AU - Tautz, D. AU - Seifert, E. AU - Jäckle, H. PY - 1988 DA - 1988// TI - Differential regulation of the two transcripts from the Drosophila gap segmentation gene hunchback. JO - EMBO J VL - 7 ID - Schröder1988 ER - TY - JOUR AU - Margolis, J. S. AU - Borowsky, M. L. AU - Steingrimsson, E. AU - Shim, C. W. AU - Lengyel, J. A. AU - Posakony, J. W. PY - 1995 DA - 1995// TI - Posterior stripe expression of hunchbackis driven from two promoters by a common enhancer element. JO - Development VL - 121 ID - Margolis1995 ER - TY - JOUR AU - Yin, Z. AU - Xu, X. L. AU - Frasch, M. PY - 1997 DA - 1997// TI - Regulation of the twist target gene tinmanby modular cis-regulatory elements during early mesoderm. JO - Development VL - 124 ID - Yin1997 ER - TY - JOUR AU - Miller, J. M. AU - Oligino, T. AU - Pazdera, M. AU - Lopez, A. J. AU - Hoshizaki, D. K. PY - 2002 DA - 2002// TI - Identification of fat-cell enhancer regions in Drosophilamelanogaster. JO - Insect Mol Biol VL - 11 ID - Miller2002 ER - TY - JOUR AU - Gindhart, J. G. AU - King, A. N. AU - Kaufman, T. C. PY - 1995 DA - 1995// TI - Characterization of the cis-regulatory region of the Drosophila homeotic gene Sex combs reduced. JO - Genetics VL - 139 ID - Gindhart1995 ER - TY - JOUR AU - Schroeder, M. D. AU - Pearce, M. AU - Fak, J. AU - Fan, H. AU - Unnerstall, U. AU - Emberly, E. AU - Rajewsky, N. AU - Siggia, E. D. AU - Gaul, U. PY - 2004 DA - 2004// TI - Transcriptional control in the segmentation gene network of Drosophila. JO - PLoS Biol VL - 2 ID - Schroeder2004 ER - TY - JOUR AU - Samad, O. A. AU - Geisen, M. J. AU - Caronia, G. AU - Varlet, I. AU - Zappavigna, V. AU - Ericson, J. AU - Goridis, C. AU - Rijli, F. M. PY - 2004 DA - 2004// TI - Integration of anteroposterior and dorsoventral regulation of Phox2btranscription in cranial motoneuron progenitors by homeodomain proteins. JO - Development VL - 131 ID - Samad2004 ER - TY - STD TI - cis-Decoder. [http://evoprinter.ninds.nih.gov/cisdecoder/index.htm] UR - http://evoprinter.ninds.nih.gov/cisdecoder/index.htm ID - ref26 ER - TY - JOUR AU - Helms, A. W. AU - Abney, A. L. AU - Ben-Arie, N. AU - Zoghbi, H. Y. AU - Johnson, J. E. PY - 2000 DA - 2000// TI - Autoregulation and multiple enhancers control Math1expression in the developing nervous system. JO - Development VL - 127 ID - Helms2000 ER - TY - JOUR AU - Manak, J. R. AU - Mathies, L. D. AU - Scott, M. P. PY - 1994 DA - 1994// TI - Regulation of a decapentaplegicmidgut enhancer by homeotic proteins. JO - Development VL - 120 ID - Manak1994 ER - TY - JOUR AU - Kuzin, A. AU - Brody, T. AU - Moore, A. W. AU - Odenwald, W. F. PY - 2005 DA - 2005// TI - Nerfin-1 is required for early axon guidance decisions in the developing DrosophilaCNS. JO - Dev Biol VL - 277 ID - Kuzin2005 ER - TY - JOUR AU - Murre, C. AU - McCaw, P. S. AU - Baltimore, D. PY - 1989 DA - 1989// TI - A new DNA binding and dimerization motif in immunoglobulin enhancer daughterless, MyoD and mycproteins. JO - Cell VL - 56 ID - Murre1989 ER - TY - JOUR AU - Powell, L. M. AU - zur Lage, P. I. AU - Prentice, D. R. A. AU - Senthinathan, B. AU - Jarman, A. P. PY - 2004 DA - 2004// TI - The proneural proteins Atonal and Scute regulate neural target genes through different E-Box binding sites. JO - Mol Cell Biol VL - 24 ID - Powell2004 ER - TY - JOUR AU - Artavanis-Tsakonas, S. AU - Rand, M. D. AU - Lake, R. J. PY - 1999 DA - 1999// TI - Notch signaling: cell fate control and signal integration in development. JO - Science VL - 284 ID - Artavanis-Tsakonas1999 ER - TY - JOUR AU - Bettenhausen, B. AU - Hrabe de Angelis, M. AU - Simon, D. AU - Guenet, J. L. AU - Gossler, A. PY - 1995 DA - 1995// TI - Transient and restricted expression during mouse embryogenesis of Dll1, a murine gene closely related to DrosophilaDelta. JO - Development VL - 121 ID - Bettenhausen1995 ER - TY - JOUR AU - Beckers, J. AU - Clark, A. AU - Wünsch, K. AU - De Angelis, M. H. AU - Gossler, A. PY - 1999 DA - 1999// TI - Expression of the mouse Delta-1 gene during organogenesis and fetal development. JO - Mech Dev VL - 84 ID - Beckers1999 ER - TY - JOUR AU - Beckers, J. AU - Caron, A. AU - Hrabe de Angelis, M. AU - Hans, S. AU - Campos-Ortega, J. A. AU - Gossler, A. PY - 2000 DA - 2000// TI - Distinct regulatory elements direct Delta-1 expression in the nervous system and paraxial mesoderm of transgenic mice. JO - Mech Dev VL - 95 ID - Beckers2000 ER - TY - JOUR AU - Rowitch, D. H. AU - Echelard, Y. AU - Danielian, P. S. AU - Gellner, K. AU - Brenner, S. AU - McMahon, A. P. PY - 1998 DA - 1998// TI - Identification of an evolutionarily conserved 110 base-pair cis-acting regulatory sequence that governs Wnt-1 expression in the murine neural plate. JO - Development VL - 125 ID - Rowitch1998 ER - TY - JOUR AU - Bagheri-Fam, S. AU - Barrionuevo, F. AU - Dohrmann, U. AU - Gunther, T. AU - Schule, R. AU - Kemler, R. AU - Mallo, M. AU - Kanzler, B. AU - Scherer, G. PY - 2006 DA - 2006// TI - Long-range upstream and downstream enhancers control distinct subsets of the complex spatiotemporal Sox9expression pattern. JO - Dev Biol VL - 291 ID - Bagheri-Fam2006 ER - TY - JOUR AU - Molkentin, J. D. AU - Antos, C. AU - Mercer, B. AU - Taigen, T. AU - Miano, J. M. AU - Olson, E. N. PY - 2000 DA - 2000// TI - Direct activation of a GATA6cardiac enhancer by Nkx2.5: evidence for a reinforcing regulatory network of Nkx2.5 and GATA transcription factors in the developing heart. JO - Dev Biol VL - 217 ID - Molkentin2000 ER - TY - JOUR AU - Awgulewitsch, A. AU - Jacobs, D. PY - 1992 DA - 1992// TI - Deformed autoregulatory element from Drosophilafunctions in a conserved manner in transgenic mice. JO - Nature VL - 358 ID - Awgulewitsch1992 ER - TY - JOUR AU - Malicki, J. AU - Cianetti, L. C. AU - Peschie, C. AU - McGinnis, W. PY - 1992 DA - 1992// TI - A human HOX4B regulatory element provides head-specific expression in Drosophila. JO - Nature VL - 358 ID - Malicki1992 ER - TY - JOUR AU - Ip, Y. T. AU - Park, R. E. AU - Kosman, D. AU - Yazdanbakhsh, K. AU - Levine, M. PY - 1992 DA - 1992// TI - dorsal-twist interactions establish snail expression in the presumptive mesoderm of the Drosophilaembryo. JO - Genes Dev VL - 6 ID - Ip1992 ER - TY - JOUR AU - Odenwald, W. F. AU - Garbern, J. AU - Arnheiter, H. AU - Tournier-Lasserve, E. AU - Lazzarini, R. A. PY - 1989 DA - 1989// TI - The Hox-1.3 homeo box protein is a sequence-specific DNA-binding phosphoprotein. JO - Genes Dev VL - 3 ID - Odenwald1989 ER - TY - JOUR AU - Gehring, W. J. PY - 1986 DA - 1986// TI - On the homeobox and its significance. JO - Bioessays VL - 5 ID - Gehring1986 ER - TY - JOUR AU - Markstein, M. AU - Zinzen, R. AU - Markstein, P. AU - Yee, K. P. AU - Erives, A. AU - Stathopoulos, A. AU - Levine, M. A. PY - 2004 DA - 2004// TI - A regulatory code for neurogenic gene expression in the Drosophilaembryo. JO - Development VL - 131 ID - Markstein2004 ER - TY - JOUR AU - Ochoa-Espinosa, A. AU - Yucel, G. AU - Kaplan, L. AU - Pare, A. AU - Pura, N. AU - Oberstein, A. AU - Papatsenko, D. AU - Small, S. PY - 2005 DA - 2005// TI - The role of binding site cluster strength in Bicoid-dependent patterning in Drosophila. JO - Proc Natl Acad Sci USA VL - 102 ID - Ochoa-Espinosa2005 ER - TY - JOUR AU - Markstein, M. AU - Markstein, P. AU - Markstein, V. AU - Levine, M. S. PY - 2002 DA - 2002// TI - Genome-wide analysis of clustered Dorsal binding sites identifies putative target genes in the Drosophilaembryo. JO - Proc Natl Acad Sci USA VL - 99 ID - Markstein2002 ER - TY - JOUR AU - Ludwig, M. AU - Bergman, C. AU - Patel, N. AU - Kreitman, M. PY - 2000 DA - 2000// TI - Evidence for stabilizing selection in a eukaryotic enhancer element. JO - Nature VL - 403 ID - Ludwig2000 ER - TY - JOUR AU - Papatsenko, D. AU - Levine, M. PY - 2005 DA - 2005// TI - Quantitative analysis of binding motifs mediating diverse spatial readouts of the Dorsal gradient in the Drosophilaembryo. JO - Proc Natl Acad Sci USA VL - 102 ID - Papatsenko2005 ER - TY - JOUR AU - Fairall, L. AU - Schwabe, J. W. AU - Chapman, L. AU - Finch, J. T. AU - Rhodes, D. PY - 1993 DA - 1993// TI - The crystal structure of a two zinc-finger peptide reveals an extension to the rules for zinc-finger/DNA recognition. JO - Nature VL - 366 ID - Fairall1993 ER - TY - JOUR AU - Schrons, H. AU - Knust, E. AU - Campos-Ortega, J. A. PY - 1992 DA - 1992// TI - The Enhancer of split complex and adjacent genes in the 96F region of Drosophila melanogasterare required for segregation of neural and epidermal progenitor cells. JO - Genetics VL - 32 ID - Schrons1992 ER - TY - JOUR AU - Usdin, T. B. AU - Hoare, S. R. AU - Wang, T. AU - Mezey, E. AU - Kowalak, J. A. PY - 1999 DA - 1999// TI - TIP39: a new neuropeptide and PTH2-receptor agonist from hypothalamus. JO - Nat Neurosci VL - 2 ID - Usdin1999 ER - TY - JOUR AU - Dobolyi, A. AU - Palkovits, M. AU - Usdin, T. B. PY - 2003 DA - 2003// TI - Expression and distribution of tuberoinfundibular peptide of 39 residues in the rat central nervous system. JO - J Comp Neurol VL - 455 ID - Dobolyi2003 ER - TY - JOUR AU - Usdin, T. B. AU - Dobolyi, A. AU - Ueda, H. AU - Palkovits, M. PY - 2003 DA - 2003// TI - Emerging functions for tuberoinfundibular peptide of 39 residues. JO - Trends Endocrinol Metab VL - 14 ID - Usdin2003 ER - TY - JOUR AU - de Celis, J. F. AU - de Celis, J. AU - Ligoxygakis, P. AU - Preiss, A. AU - Delidakis, C. AU - Bray, S. PY - 1996 DA - 1996// TI - Functional relationships between Notch, Su(H) and the bHLH genes of the E(spl) complex: the E(spl) genes mediate only a subset of Notchactivities during imaginal development. JO - Development VL - 122 ID - de Celis1996 ER - TY - JOUR AU - Nellesen, D. T. AU - Lai, E. C. AU - Posakony, J. W. PY - 1999 DA - 1999// TI - Discrete enhancer elements mediate selective responsiveness of enhancer of splitcomplex genes to common transcriptional activators. JO - Dev Biol VL - 213 ID - Nellesen1999 ER - TY - JOUR AU - Bray, S. J. PY - 1997 DA - 1997// TI - Expression and function of Enhancer of split bHLH proteins during Drosophilaneurogenesis. JO - Perspect Dev Neurobiol VL - 4 ID - Bray1997 ER - TY - JOUR AU - Lai, E. C. AU - Posakony, J. W. PY - 1997 DA - 1997// TI - The Bearded box, a novel 3' UTR sequence motif, mediates negative post-transcriptional regulation of Bearded and Enhancer of split Complex gene expression. JO - Development VL - 124 ID - Lai1997 ER - TY - STD TI - EvoPrinter. , [http://evoprinter.ninds.nih.gov/] UR - http://evoprinter.ninds.nih.gov/ ID - ref58 ER - TY - STD TI - Puzzamatic. [http://www.mcn.org/c/rsurratt/Puzzamatic/WordSearchJar.html] UR - http://www.mcn.org/c/rsurratt/Puzzamatic/WordSearchJar.html ID - ref59 ER - TY - STD TI - cDT-cleaner. , [http://evoprinter.ninds.nih.gov/cisdecoder/Cdt_cleaner.htm] UR - http://evoprinter.ninds.nih.gov/cisdecoder/Cdt_cleaner.htm ID - ref60 ER - TY - JOUR AU - Ramos, E. AU - Price, M. AU - Rohrbaugh, M. AU - Lai, Z. C. PY - 2003 DA - 2003// TI - Identifying functional cis-acting regulatory modules of the yan gene in Drosophila melanogaster. JO - Dev Genes Evol VL - 213 ID - Ramos2003 ER - TY - JOUR AU - Sun, Y. AU - Jan, L. Y. AU - Jan, Y. N. PY - 1998 DA - 1998// TI - Transcriptional regulation of atonal during development of the Drosophilaperipheral nervous system. JO - Development VL - 125 ID - Sun1998 ER - TY - JOUR AU - Lee, H. H. AU - Frasch, M. PY - 2005 DA - 2005// TI - Nuclear integration of positive Dpp signals antagonistic Wg inputs and mesodermal competence factors during Drosophilavisceral mesoderm induction. JO - Development VL - 132 ID - Lee2005 ER - TY - JOUR AU - Bush, A. AU - Hiromi, Y. AU - Cole, M. PY - 1996 DA - 1996// TI - Biparous: a novel bHLH gene expressed in neuronal and glial precursors in Drosophila. JO - Dev Biol VL - 180 ID - Bush1996 ER - TY - JOUR AU - Reeves, N. AU - Posakony, J. W. PY - 2005 DA - 2005// TI - Genetic programs activated by proneural proteins in the developing DrosophilaPNS. JO - Dev Cell VL - 8 ID - Reeves2005 ER - TY - JOUR AU - McDonald, J. A. AU - Fujioka, M. AU - Odden, J. P. AU - Jaynes, J. B. AU - Doe, C. Q. PY - 2003 DA - 2003// TI - Specification of motoneuron fate in Drosophila: integration of positive and negative transcription factor inputs by a minimal eveenhancer. JO - J Neurobiol VL - 57 ID - McDonald2003 ER - TY - JOUR AU - Jiang, J. AU - Hoey, T. AU - Levine, M. PY - 1991 DA - 1991// TI - Autoregulation of a segmentation gene in Drosophila: combinatorial interaction of the even-skipped homeo box protein with a distal enhancer element. JO - Genes Dev VL - 5 ID - Jiang1991 ER - TY - JOUR AU - Small, S. AU - Blair, A. AU - Levine, M. PY - 1992 DA - 1992// TI - Regulation of even-skipped stripe 2 in the Drosophilaembryo. JO - EMBO J VL - 11 ID - Small1992 ER - TY - JOUR AU - Small, S. AU - Blair, A. AU - Levine, M. PY - 1996 DA - 1996// TI - Regulation of two pair-rule stripes by a single enhancer in the Drosophilaembryo. JO - Dev Biol VL - 175 ID - Small1996 ER - TY - JOUR AU - Pick, L. AU - Schier, A. AU - Affolter, M. AU - Schmidt-Glenewinkel, T. AU - Gehring, W. J. PY - 1990 DA - 1990// TI - Analysis of the ftzupstream element: germ layer-specific enhancers are independently autoregulated. JO - Genes Dev VL - 4 ID - Pick1990 ER - TY - JOUR AU - Berman, B. P. AU - Pfeiffer, B. D. AU - Laverty, T. R. AU - Salzberg, S. L. AU - Rubin, G. M. AU - Eisen, M. B. AU - Celniker, S. E. PY - 2004 DA - 2004// TI - Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura. JO - Genome Biol VL - 5 ID - Berman2004 ER - TY - JOUR AU - Hiromi, Y. AU - Kuroiwa, A. AU - Gehring, W. J. PY - 1985 DA - 1985// TI - Control elements of the Drosophila segmentation gene fushi tarazu. JO - Cell VL - 43 ID - Hiromi1985 ER - TY - JOUR AU - Li, X. AU - Gutjahr, T. AU - Noll, M. PY - 1993 DA - 1993// TI - Separable regulatory elements mediate the establishment and maintenance of cell states by the Drosophila segment-polarity gene gooseberry. JO - EMBO J VL - 12 ID - Li1993 ER - TY - JOUR AU - Bouchard, M. AU - St-Amand, J. AU - Cote, S. PY - 2000 DA - 2000// TI - Combinatorial activity of pair-rule proteins on the Drosophila gooseberryearly enhancer. JO - Dev Biol VL - 222 ID - Bouchard2000 ER - TY - JOUR AU - La Rosée, A. AU - Häder, T. AU - Taubert, H. AU - Rivera-Pomar, R. AU - Jäckle, H. PY - 1997 DA - 1997// TI - Mechanism and Bicoid dependent control of hairy stripe 7 expression in the posterior region of the Drosophilaembryo. JO - EMBO J VL - 16 ID - La Rosée1997 ER - TY - JOUR AU - Langeland, J. A. AU - Carroll, S. B. PY - 1993 DA - 1993// TI - Conservation of regulatory elements controlling hairypair-rule stripe formation. JO - Development VL - 117 ID - Langeland1993 ER - TY - JOUR AU - Howard, K. R. AU - Struhl, G. PY - 1990 DA - 1990// TI - Decoding positional information: regulation of the pair-rule gene hairy. JO - Development VL - 110 ID - Howard1990 ER - TY - JOUR AU - Stathopoulos, A. AU - Tam, B. AU - Ronshaugen, M. AU - Frasch, M. AU - Levine, M. PY - 2004 DA - 2004// TI - pyramus and thisbe: FGF genes that pattern the mesoderm of Drosophilaembryos. JO - Genes Dev VL - 18 ID - Stathopoulos2004 ER - TY - JOUR AU - Hader, T. AU - Wainwright, D. AU - Shandala, T. AU - Saint, R. AU - Taubert, H. AU - Bronner, G. AU - Jäckle, H. PY - 2000 DA - 2000// TI - Receptor tyrosine kinase signaling regulates different modes of Groucho-dependent control of Dorsal. JO - Curr Biol VL - 10 ID - Hader2000 ER - TY - JOUR AU - Driever, W. AU - Thoma, G. AU - Nusslein-Volhard, C. PY - 1989 DA - 1989// TI - Determination of spatial domains of zygotic gene expression in the Drosophilaembryo by the affinity of binding sites for the bicoid morphogen. JO - Nature VL - 340 ID - Driever1989 ER - TY - JOUR AU - Biemar, F. AU - Zinzen, R. AU - Ronshaugen, M. AU - Sementchenko, V. AU - Manak, J. R. AU - Levine, M. S. PY - 2005 DA - 2005// TI - Spatial regulation of microRNA gene expression in the Drosophilaembryo. JO - Proc Natl Acad Sci USA VL - 102 ID - Biemar2005 ER - TY - JOUR AU - Nguyen, H. T. AU - Xu, X. PY - 1998 DA - 1998// TI - Drosophila mef2expression during mesoderm development is controlled by a complex array of cis-acting regulatory modules. JO - Dev Biol VL - 204 ID - Nguyen1998 ER - TY - JOUR AU - Gutjahr, T. AU - Vanario-Alonso, C. E. AU - Pick, L. AU - Noll, M. PY - 1994 DA - 1994// TI - Multiple regulatory elements direct the complex expression pattern of the Drosophila segmentation gene paired. JO - Mech Dev VL - 48 ID - Gutjahr1994 ER - TY - JOUR AU - Kambadur, R. AU - Koizumi, K. AU - Stivers, C. AU - Nagle, J. AU - Poole, S. J. AU - Odenwald, W. F. PY - 1998 DA - 1998// TI - Regulation of POU genes by castor and hunchback establishes layered compartments in the DrosophilaCNS. JO - Genes Dev VL - 12 ID - Kambadur1998 ER - TY - JOUR AU - Reddy, K. L. AU - Wohlwill, A. AU - Dzitoeva, S. AU - Lin, M. H. AU - Holbrook, S. AU - Storti, R. V. PY - 2000 DA - 2000// TI - The Drosophila PAR domain protein 1 (Pdp1) gene encodes multiple differentially expressed mRNAs and proteins through the use of multiple enhancers and promoters. JO - Dev Biol VL - 224 ID - Reddy2000 ER - TY - JOUR AU - Klingler, M. AU - Soong, J. AU - Butler, B. AU - Gergen, J. P. PY - 1996 DA - 1996// TI - Disperse versus compact elements for the regulation of runt stripes in Drosophila. JO - Dev Biol VL - 177 ID - Klingler1996 ER - TY - JOUR AU - Culi, J. AU - Modolell, J. PY - 1998 DA - 1998// TI - Proneural gene self-stimulation in neural precursors: an essential mechanism for sense organ development that is regulated by Notch signaling. JO - Genes Dev VL - 12 ID - Culi1998 ER - TY - JOUR AU - Lehman, D. A. AU - Patterson, B. AU - Johnston, L. A. AU - Balzer, T. AU - Britton, J. S. AU - Saint, R. AU - Edgar, B. A. PY - 1999 DA - 1999// TI - Cis-regulatory elements of the mitotic regulator, string/Cdc25. JO - Development VL - 126 ID - Lehman1999 ER - TY - JOUR AU - McCormick, A. AU - Core, N. AU - Kerridge, S. AU - Scott, M. P. PY - 1995 DA - 1995// TI - Homeotic response elements are tightly linked to tissue-specific elements in a transcriptional enhancer of the teashirtgene. JO - Development VL - 121 ID - McCormick1995 ER - TY - JOUR AU - Wharton, K. A. AU - Crews, S. T. PY - 1993 DA - 1993// TI - CNS midline enhancers of the Drosophila slit and Tollgenes. JO - Mech Dev VL - 40 ID - Wharton1993 ER - TY - JOUR AU - Buttgereit, D. PY - 1993 DA - 1993// TI - Redundant enhancer elements guide beta 1 tubulin gene expression in apodemes during Drosophilaembryogenesis. JO - J Cell Sci VL - 105 ID - Buttgereit1993 ER - TY - JOUR AU - Lin, S. C. AU - Lin, M. H. AU - Horvath, P. AU - Reddy, K. L. AU - Storti, R. V. PY - 1997 DA - 1997// TI - PDP1, a novel DrosophilaPAR domain bZIP transcription factor expressed in developing mesoderm, endoderm and ectoderm, is a transcriptional regulator of somatic muscle genes. JO - Development VL - 124 ID - Lin1997 ER - TY - JOUR AU - Shao, X. AU - Koizumi, K. AU - Nosworthy, N. AU - Tan, D. P. AU - Odenwald, W. F. AU - Nirenberg, M. PY - 2002 DA - 2002// TI - Regulatory DNA required for vnd/NK-2homeobox gene expression pattern in neuroblasts. JO - Proc Natl Acad Sci USA VL - 99 ID - Shao2002 ER - TY - JOUR AU - Ashraf, S. I. AU - Hu, X. AU - Roote, J. AU - Ip, Y. T. PY - 1999 DA - 1999// TI - The mesoderm determinant Snail collaborates with related zinc-finger proteins to control Drosophilaneurogenesis. JO - EMBO J VL - 18 ID - Ashraf1999 ER - TY - JOUR AU - Rodrigo, I. AU - Bovolenta, P. AU - Mankoo, B. S. AU - Imai, K. PY - 2004 DA - 2004// TI - Meox homeodomain proteins are required for bapx1expression in the sclerotome and activate its transcription by direct binding to its promoter. JO - Mol Cell Biol VL - 24 ID - Rodrigo2004 ER - TY - JOUR AU - Tou, L. AU - Quibria, N. AU - Alexander, J. M. PY - 2003 DA - 2003// TI - Transcriptional regulation of the human Runx2/Cbfa1 gene promoter by bone morphogenetic protein-7. JO - Mol Cell Endocrinol VL - 205 ID - Tou2003 ER - TY - JOUR AU - Kim, I. M. AU - Zhou, Y. AU - Ramakrishna, S. AU - Hughes, D. E. AU - Solway, J. AU - Costa, R. H. AU - Kalinichenko, V. V. PY - 2005 DA - 2005// TI - Functional characterization of evolutionarily conserved DNA regions in forkhead box f1 gene locus. JO - J Biol Chem VL - 280 ID - Kim2005 ER - TY - JOUR AU - McFadden, D. G. AU - Charite, J. AU - Richardson, J. A. AU - Srivastava, D. AU - Firulli, A. B. AU - Olson, E. N. PY - 2000 DA - 2000// TI - A GATA-dependent right ventricular enhancer controls dHAND transcription in the developing heart. JO - Development VL - 127 ID - McFadden2000 ER - TY - JOUR AU - Bessho, Y. AU - Sakata, R. AU - Komatsu, S. AU - Shiota, K. AU - Yamada, S. AU - Kageyama, R. PY - 2001 DA - 2001// TI - Dynamic expression and essential functions of Hes7in somite segmentation. JO - Genes Dev VL - 15 ID - Bessho2001 ER - TY - JOUR AU - Tabaries, S. AU - Lapointe, J. AU - Besch, T. AU - Carter, M. AU - Woollard, J. AU - Tuggle, C. K. AU - Jeannotte, L. PY - 2005 DA - 2005// TI - Cdx protein interaction with Hoxa5 regulatory sequences contributes to Hoxa5regional expression along the axial skeleton. JO - Mol Cell Biol VL - 25 ID - Tabaries2005 ER - TY - JOUR AU - Mühlfriedel, S. AU - Kirsch, F. AU - Gruss, P. AU - Stoykova, A. AU - Chowdhury, K. PY - 2005 DA - 2005// TI - A roof plate-dependent enhancer controls the expression of Homeodomain only protein in the developing cerebral cortex. JO - Dev Biol VL - 283 ID - Mühlfriedel2005 ER - TY - JOUR AU - Breslin, M. B. AU - Zhu, M. AU - Lan, M. S. PY - 2003 DA - 2003// TI - Neurod1/E47 regulates the E-box element of a novel zinc finger transcription factor, IA-1, in developing nervous system. JO - J Biol Chem VL - 278 ID - Breslin2003 ER - TY - JOUR AU - Jethanandani, P. AU - Kramer, R. H. PY - 2005 DA - 2005// TI - α7 integrin expression is negatively regulated by δEF1 during skeletal myogenesis. JO - J Biol Chem VL - 280 ID - Jethanandani2005 ER - TY - JOUR AU - Wang, D. Z. AU - Valdez, M. R. AU - McAnally, J. AU - Richardson, J. AU - Olson, E. N. PY - 2001 DA - 2001// TI - The Mef2cgene is a direct transcriptional target of myogenic bHLH and MEF2 proteins during skeletal muscle development. JO - Development VL - 128 ID - Wang2001 ER - TY - JOUR AU - Verma-Kurvari, S. AU - Savage, T. AU - Gowan, K. AU - Johnson, J. E. PY - 1996 DA - 1996// TI - Lineage-specific regulation of the neural differentiation gene MASH1. JO - Dev Biol VL - 180 ID - Verma-Kurvari1996 ER - TY - JOUR AU - Buchberger, A. AU - Nomokonova, N. AU - Arnold, H. H. PY - 2003 DA - 2003// TI - Myf5 expression in somites and limb buds of mouse embryos is controlled by two distinct distal enhancer activities. JO - Development VL - 130 ID - Buchberger2003 ER - TY - JOUR AU - Zimmerman, L. AU - Parr, B. AU - Lendahl, U. AU - Cunningham, M. AU - McKay, R. AU - Gavin, B. AU - Mann, J. AU - Vassileva, G. AU - McMahon, A. PY - 1994 DA - 1994// TI - Independent regulatory elements in the nestin gene direct transgene expression to neural stem cells or muscle precursors. JO - Neuron VL - 12 ID - Zimmerman1994 ER - TY - JOUR AU - Zhou, B. AU - Wu, B. AU - Tompkins, K. L. AU - Boyer, K. L. AU - Grindley, J. C. AU - Baldwin, H. S. PY - 2005 DA - 2005// TI - Characterization of Nfatc1 regulation identifies an enhancer required for gene expression that is specific to pro-valve endocardial cells in the developing heart. JO - Development VL - 132 ID - Zhou2005 ER - TY - JOUR AU - Simmons, A. D. AU - Horton, S. AU - Abney, A. L. AU - Johnson, J. E. PY - 2001 DA - 2001// TI - Neurogenin2expression in ventral and dorsal spinal neural tube progenitor cells is regulated by distinct enhancers. JO - Dev Biol VL - 229 ID - Simmons2001 ER - TY - JOUR AU - Lien, C. L. AU - McAnally, J. AU - Richardson, J. A. AU - Olson, E. N. PY - 2002 DA - 2002// TI - Cardiac-specific activity of an Nkx2-5enhancer requires an evolutionarily conserved Smad binding site. JO - Dev Biol VL - 244 ID - Lien2002 ER - TY - JOUR AU - Kurokawa, D. AU - Takasaki, N. AU - Kiyonari, H. AU - Nakayama, R. AU - Kimura-Yoshida, C. AU - Matsuo, I. AU - Aizawa, S. PY - 2004 DA - 2004// TI - Regulation of Otx2expression and its functions in mouse epiblast and anterior neuroectoderm. JO - Development VL - 134 ID - Kurokawa2004 ER - TY - JOUR AU - Brown, C. B. AU - Engleka, K. A. AU - Wenning, J. AU - Lu, M. M. AU - Epstein, J. A. PY - 2005 DA - 2005// TI - Identification of a hypaxial somite enhancer element regulating Pax3expression in migrating myoblasts and characterization of hypaxial muscle Cre transgenic mice. JO - Genesis VL - 41 ID - Brown2005 ER - TY - JOUR AU - Barron, M. R. AU - Belaguli, N. S. AU - Zhang, S. X. AU - Trinh, M. AU - Iyer, D. AU - Merlo, X. AU - Lough, J. W. AU - Parmacek, M. S. AU - Bruneau, B. G. AU - Schwartz, R. J. PY - 2005 DA - 2005// TI - Serum response factor, an enriched cardiac mesoderm obligatory factor, is a downstream gene target for Tbx genes. JO - J Biol Chem VL - 280 ID - Barron2005 ER - TY - JOUR AU - Kutejova, E. AU - Engist, B. AU - Mallo, M. AU - Kanzler, B. AU - Bobola, N. PY - 2005 DA - 2005// TI - Hoxa2 downregulates Six2 in the neural crest-derived mesenchyme. JO - Development VL - 132 ID - Kutejova2005 ER - TY - JOUR AU - Catena, R. AU - Tiveron, C. AU - Ronchi, A. AU - Porta, S. AU - Ferri, A. AU - Tatangelo, L. AU - Cavallaro, M. AU - Favaro, R. AU - Ottolenghi, S. AU - Reinbold, R. PY - 2004 DA - 2004// TI - Conserved POU binding DNA sites in the Sox-2 upstream enhancer regulate gene expression in embryonic and neural stem cells. JO - J Biol Chem VL - 279 ID - Catena2004 ER - TY - JOUR AU - Miyagi, S. AU - Nishimoto, M. AU - Saito, T. AU - Ninomiya, M. AU - Sawamoto, K. AU - Okano, H. AU - Muramatsu, M. AU - Oguro, H. AU - Iwama, A. AU - Okuda, A. PY - 2006 DA - 2006// TI - The Sox2 regulatory region 2 functions as a neural stem cell specific enhancer in the telencephalon. JO - J Biol Chem VL - 281 ID - Miyagi2006 ER - TY - JOUR AU - Gottgens, B. AU - Nastos, A. AU - Kinston, S. AU - Piltz, S. AU - Delabesse, E. C. AU - Stanley, M. AU - Sanchez, M. J. AU - Ciau-Uitz, A. AU - Patient, R. AU - Green, A. R. PY - 2002 DA - 2002// TI - Establishing the transcriptional programme for blood: the SCL stem cell enhancer is regulated by a multiprotein complex containing Ets and GATA factors. JO - EMBO J VL - 21 ID - Gottgens2002 ER - TY - JOUR AU - Yamagishi, H. AU - Maeda, J. AU - Hu, T. AU - McAnally, J. AU - Conway, S. J. AU - Kume, T. AU - Meyers, N. AU - Yamagishi, C. AU - Srivastava, D. PY - 2003 DA - 2003// TI - Tbx1is regulated by tissue-specific forkhead proteins through a common Sonic hedgehog-responsive enhancer. JO - Genes Dev VL - 17 ID - Yamagishi2003 ER - TY - JOUR AU - Carroll, S. B. AU - Laughon, A. AU - Thalley, B. S. PY - 1988 DA - 1988// TI - Expression, function, and regulation of the hairy segmentation protein in the Drosophilaembryo. JO - Genes Dev VL - 2 ID - Carroll1988 ER - TY - JOUR AU - Stanojevic, D. AU - Hoey, T. AU - Levine, M. PY - 1989 DA - 1989// TI - Sequence-specific DNA-binding activities of the gap proteins encoded by hunchback and Kruppel in Drosophila. JO - Nature VL - 341 ID - Stanojevic1989 ER - TY - JOUR AU - Treisman, J. AU - Desplan, C. PY - 1989 DA - 1989// TI - The products of the Drosophila gap genes hunchback and Kruppel bind to the hunchbackpromoters. JO - Nature VL - 341 ID - Treisman1989 ER - TY - JOUR AU - Ekker, S. C. AU - Jackson, D. G. AU - von Kessler, D. P. AU - Sun, B. I. AU - Young, K. E. AU - Beachy, P. A. PY - 1994 DA - 1994// TI - The degree of variation in DNA sequence recognition among four Drosophilahomeotic proteins. JO - EMBO J VL - 13 ID - Ekker1994 ER - TY - JOUR AU - Ohsako, S. AU - Hyer, J. AU - Panganiban, G. AU - Oliver, I. AU - Caudy, M. PY - 1994 DA - 1994// TI - Hairy function as a DNA-binding helix-loop-helix repressor of Drosophilasensory organ formation. JO - Genes Dev VL - 8 ID - Ohsako1994 ER -