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blobbybirdman gene [67 articles]

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  • REDUCE: An online tool for inferring cis-regulatory elements and transcriptional module activities from microarray data
    Nucleic Acids Res, Vol. 31, No. 13. (2003), pp. 3487-90.
    by C Roven, HJ Bussemaker
    posted to acid algorithms analysis analysismethods animals array binding cerevisiaegeneticsmetabolism database design dna drosophila expression factorsmetabolism gene genetic govt internet management melanogastergeneticsmetabolism messengermetabolism nucleic oligonucleotide phs profilingmethods regression regulatory rna saccharomyces sequence sequences sites software support systems transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:34 as **
  • High-throughput SELEX SAGE method for quantitative modeling of transcription-factor binding sites
    Nat Biotechnol, Vol. 20, No. 8. (2002), pp. 831-5.
    by E Roulet, S Busso, AA Camargo, AJ Simpson, N Mermod, P Bucher
    posted to base binding biological biologymethods ccaat-enhancer-binding computational computer consensus dna-binding dnageneticsmetabolism elementsgenetics expression factorsmetabolism gene genome genomicsmethods govt ligands models non-us protein proteinsmetabolism regulation research response sequence sequencegenetics simulation sites specificity substrate support transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:34 as **
  • Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation
    Nat Biotechnol, Vol. 16, No. 10. (1998), pp. 939-45.
    by FP Roth, JD Hughes, PW Estep, GM Church
    posted to acid cerevisiaegeneticsgrowth cloning development dnagenetics expression fungal galactosemetabolism gene glucosemetabolism govt messengergenetics molecular non-phs nucleic peptidesgenetics regulation regulatory rna saccharomyces sequences support us bibtex-import by blobbybirdman on 2007-10-09 17:56:34 as **
  • The relative importance of transcriptional and post transcriptional regulation of Drosophila chorion gene expression during oogenesis
    Dev Genet, Vol. 12, No. 3. (1991), pp. 196-205.
    by CP Romano, Martinez JC Cruzado, FC Kafatos
    posted to animals blotting chorionmetabolism densitometry development dnaanalysis drosophila expression gene genetic govt iimetabolism mapping melanogastergeneticsgrowth oogenesisgenetics phs polymerase regulation research restriction rna rnaanalysis southern support transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:33 as **
  • Transcriptional enhancer activity of hr5 requires dual-palindrome half sites that mediate binding of a dimeric form of the baculovirus transregulator IE1
    J Virol, Vol. 69, No. 9. (1995), pp. 5368-75.
    by SM Rodems, PD Friesen
    posted to animals base binding cell chain competitive data dna dna-binding elements enhancer expression gene genetics govt immediate-early line molecular nucleopolyhedrovirusgeneticsmetabolism nucleusmetabolism phs plasmids polymerase primers probes promoter proteins proteinschemistrymetabolism reaction regions regulation research sequence sites spodoptera support trans-activation trans-activatorschemistrymetabolism us viral viralmetabolism bibtex-import by blobbybirdman on 2007-10-09 17:56:33 as **
  • A role for activator-mediated TFIIB recruitment in diverse aspects of transcriptional regulation
    Curr Biol, Vol. 5, No. 5. (1995), pp. 508-16.
    by SG Roberts, B Choy, SS Walker, YS Lin, MR Green
    posted to expression factor factorsphysiology gene genetic govt mutation non-us phs regulation research support tfiib trans-activatorsclassificationphysiology transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:32 as **
  • Reverse engineering of regulatory networks: simulation studies on a genetic algorithm approach for ranking hypotheses
    Biosystems, Vol. 66, No. 1-2. (2002), pp. 31-41.
    by D Repsilber, H Liljenstrom, SG Andersson
    posted to algorithms engineering expression gene genetic govt models non-us regulation research support bibtex-import by blobbybirdman on 2007-10-09 17:56:32 as **
  • Genome-wide location and function of DNA binding proteins
    Science, Vol. 290, No. 5500. (2000), pp. 2306-9.
    by B Ren, F Robert, JJ Wyrick, O Aparicio, EG Jennings, I Simon, J Zeitlinger, J Schreiber, N Hannett, E Kanin, TL Volkert, CJ Wilson, SP Bell, RA Young
    posted to analysis array binding cell cerevisiae cerevisiaegeneticsmetabolismphysiology cycle dna dna-binding expression factorsmetabolism fungal fungalgeneticsmetabolism galactosemetabolism gene genes genetics genome govt non-us oligonucleotide peptidespharmacology phs profiling promoter proteins proteinsmetabolism regions regulation research saccharomyces sequence sites support trans-activation transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:32 as **
  • Use of chromatin immunoprecipitation assays in genome-wide location analysis of mammalian transcription factors
    Methods Enzymol, Vol. 376 (2004), pp. 304-15.
    by B Ren, BD Dynlacht
    posted to analysis animals array chain chromatingeneticsmetabolism cross-linking dna-binding expression factorsgeneticsmetabolism gene genetics genome govt humans mammalsgenetics non-us oligonucleotide polymerase precipitin profiling promoter proteinsmetabolism reaction reagentsmetabolism regions research sequence support testsmethods transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:32 as **
  • Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo
    BMC Bioinformatics, Vol. 3, No. 1. (2002)
    by N Rajewsky, M Vergassola, U Gaul, ED Siggia
    posted to acid algorithms amino animals binding biologymethods body chromosome comparative computational consensus developmentalgenetics drosophila expression gene geneticgenetics genomicsmethods govt mappingmethods melanogasterembryologygenetics motifs non-phs patterninggenetics phs proteinsgenetics regulation research sequence sitesgenetics software study support trans-activatorsgeneticsmetabolism transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:32 as **
  • Bilaterian origins: significance of new experimental observations
    Dev Biol, Vol. 219, No. 1. (2000), pp. 1-17.
    by KJ Peterson, RA Cameron, EH Davidson
    posted to animals annelida biological chordata development developmental echinodermata evolution expression family gene genes govt homeobox invertebratesgeneticsgrowth models mollusca multigene non-phs non-us nonvertebrate phs phylogeny regulation research support us bibtex-import by blobbybirdman on 2007-10-09 17:56:31 as **
  • Design superiority of palindromic DNA sites for site-specific recognition of proteins: tests using protein stitchery
    Proc Natl Acad Sci U S A, Vol. 90, No. 11. (1993), pp. 4892-6.
    by C Park, JL Campbell, 3rd
    posted to acid amino base binding comparative conformation data dna-binding dnageneticsmetabolism gene genes govt homology jun leucine macromolecular models molecular non-phs non-us nucleic oligodeoxyribonucleotideschemical oncogene p65gag-jungeneticsmetabolism peptideschemical protein proteinsgeneticsmetabolism rearrangement research secondary sequence sites structural structure study substances support synthesismetabolism us zippersgeneticsphysiology bibtex-import by blobbybirdman on 2007-10-09 17:56:31 as **
  • Dosage sensitivity and the evolution of gene families in yeast
    Nature, Vol. 424, No. 6945. (2003), pp. 194-7.
    by B Papp, C Pal, LD Hurst
    posted to binding cerevisiae cerevisiaegeneticsphysiology dosage evolution family fungal gene genes genetic govt heterozygote macromolecular models molecular multigene mutagenesis non-us protein proteinsgenetics research saccharomyces substances support bibtex-import by blobbybirdman on 2007-10-09 17:56:31 as **
  • Extraction of functional binding sites from unique regulatory regions: the Drosophila early developmental enhancers
    Genome Res, Vol. 12, No. 3. (2002), pp. 470-81.
    by DA Papatsenko, VJ Makeev, AP Lifanov, M Regnier, AG Nazina, C Desplan
    posted to acidgenetics algorithms animals bacterial base binding chromosome coli comparative data developmentalgenetics dna-binding drosophila elements enhancer escherichia expression factors familygenetics gene genes geneticsgenetics govt homeodomain insectgenetics mappingmethodsstatistics melanogastergenetics molecular multigene non-phs non-us nucleic numerical phs proteins proteinsgenetics protozoan regulation regulatory repeat research sequence sequences sequencesgenetics sitesgenetics structural study support tandem transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:30 as **
  • Simulating evolution by gene duplication
    Genetics, Vol. 115, No. 1. (1987), pp. 207-13.
    by T Ohta
    posted to alleles crossing evolution family frequency gene genetic genetics govt models multigene non-us over research selection support bibtex-import by blobbybirdman on 2007-10-09 17:56:30 as **
  • A powerful non-homology method for the prediction of operons in prokaryotes
    Bioinformatics, Vol. 18 Suppl 1 (2002), pp. S329-36.
    by Moreno G Hagelsieb, Collado J Vides
    posted to acid algorithms amino analysis bacteriagenetics bacterial bacterialgenetics base cells chromosome comparative data dnamethods expression factorsgenetics gene genome govt homology mappingmethods molecular non-us operongenetics profilingmethods prokaryotic regulation research sequence study support transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:30 as **
  • Phosphorylation-independent bacterial chemoresponses correlate with changes in the cytoplasmic level of fumarate
    J Bacteriol, Vol. 178, No. 23. (1996), pp. 6882-7.
    by M Montrone, D Oesterhelt, W Marwan
    posted to acid bacterial benzoatespharmacology benzoic chemotaxisdrug coligeneticsmetabolismphysiology cytoplasmmetabolism deletion effects enzyme escherichia fumarate fumaratesmetabolism gene govt hydrataseantagonists indolespharmacology inhibitorsgeneticsmetabolism inhibitorspharmacology membrane non-us oxidation-reduction phosphorylation proteins proteinsmetabolism research signal support transduction bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • Regulation of switching frequency and bias of the bacterial flagellar motor by CheY and fumarate
    J Bacteriol, Vol. 180, No. 13. (1998), pp. 3375-80.
    by M Montrone, M Eisenbach, D Oesterhelt, W Marwan
    posted to arabinosepharmacology bacterial chemotaxis colidrug deletion effectsgeneticsphysiology escherichia factors flagellaphysiology fumaratespharmacology gene genotype govt kinetics membrane non-us proteins proteinsbiosynthesisgeneticsmetabolism research support time bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation
    Bioinformatics, Vol. 22, No. 5. (2006), pp. 637-40.
    by SB Montgomery, OL Griffith, MC Sleumer, CM Bergman, M Bilenky, ED Pleasance, Y Prychyna, X Zhang, SJ Jones
    posted to binding database databases documentationmethods expression factorsgenetics gene genetic geneticsgenetics govt internet language management natural non-us periodicals processing promoter protein regions regulationgenetics research sites support systems transcription variation bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • Deciphering genetic regulatory codes: a challenge for functional genomics
    Proc Natl Acad Sci U S A, Vol. 99, No. 2. (2002), pp. 546-8.
    by AM Michelson
    posted to algorithms animals binding developmental drosophila elements enhancer expression factorsmetabolism gene genes genetic genetics genomics govt insect melanogasterembryologygenetics models non-us regulation regulator research sitesgenetics support transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • Conservation of DNA regulatory motifs and discovery of new motifs in microbial genomes
    Genome Res, Vol. 10, No. 6. (2000), pp. 744-57.
    by AM Mcguire, JD Hughes, GM Church
    posted to acid alignment bacterial bacterialanalysis biology comparative computational conserved dna expression gene genes genome govt homology non-phs non-us nucleic regulation regulatory sequence sequencegenetics sequences structural study support us bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • TRANSFAC: transcriptional regulation, from patterns to profiles
    Nucleic Acids Res, Vol. 31, No. 1. (2003), pp. 374-8.
    by V Matys, E Fricke, R Geffers, E Gossling, M Haubrock, R Hehl, K Hornischer, D Karas, AE Kel, Kel OV Margoulis, DU Kloos, S Land, Lewicki B Potapov, H Michael, R Munch, I Reuter, S Rotert, H Saxel, M Scheer, S Thiele, E Wingender
    posted to animals binding cellsmetabolism databases developmental distribution eukaryotic expression factorsgeneticsmetabolism gene genetic genetics govt human mice non-us profiling promoter regions regulation saccharomycesgeneticsmetabolism sites support tissue transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • A regulatory code for neurogenic gene expression in the Drosophila embryo
    Development, Vol. 131, No. 10. (2004), pp. 2387-94.
    by M Markstein, R Zinzen, P Markstein, KP Yee, A Erives, A Stathopoulos, M Levine
    posted to animals anophelesgenetics base chain cloning data developmentalgenetics drosophila ectodermphysiology elements embryo enhancer expression factorsgenetics gene geneticsgenetics govt male melanogasterembryologygenetics mesodermphysiology molecular mutagenesis nervous nonmammalianphysiology phs polymerase proteinsgenetics reaction regulation regulationgenetics repressor research sequence support systemembryology transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:28 as **
  • A suite of web-based programs to search for transcriptional regulatory motifs
    Nucleic Acids Res, Vol. 32, No. Web Server issue. (2004), pp. W204-7.
    by Y Liu, L Wei, S Batzoglou, DL Brutlag, JS Liu, XS Liu
    posted to acid algorithms binding dnachemistrymetabolism expression factorsmetabolism gene genetic interface internet nucleic regulation regulatory sequences sites software transcription user-computer bibtex-import by blobbybirdman on 2007-10-09 17:56:27 as **
  • An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments
    Nat Biotechnol, Vol. 20, No. 8. (2002), pp. 835-9.
    by XS Liu, DL Brutlag, JS Liu
    posted to algorithms analysismethods and array base binding biologymethods cerevisiae cerevisiaegenetics chromatingeneticsmetabolism computational dna-binding dnageneticsmetabolism elementsgenetics expression factors factorsmetabolism fungalgenetics gene genes govt internet non-phs oligonucleotide phs precipitin protein proteinsmetabolism regulation response saccharomyces sensitivity sequence sites software specificity support telomere-binding telomeregeneticsmetabolism testsmethods time transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:27 as **
  • BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes
    Pac Symp Biocomput (2001), pp. 127-38.
    by X Liu, DL Brutlag, JS Liu
    posted to alignmentstatistics amp analysisstatistics array bacillus base binding box cerevisiaegeneticsmetabolism chains coligeneticsmetabolism conserved cyclic data dnageneticsmetabolism escherichia expression gene genes genetic govt gtp-binding markov models non-phs non-us numerical oligonucleotide phs profilingstatistics proteinmetabolism proteinsmetabolism rap1 receptor regulator saccharomyces sequence sites software subtilisgeneticsmetabolism support tata us bibtex-import by blobbybirdman on 2007-10-09 17:56:27 as **
  • Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association
    Nat Genet, Vol. 28, No. 4. (2001), pp. 327-34.
    by JD Lieb, X Liu, D Botstein, PO Brown
    posted to binding bindingphysiology cerevisiae cerevisiaegeneticsmetabolism chromosome deacetylasesmetabolism dna dna-binding dnametabolism expression framesphysiology fungal fungalphysiology gene genes geneticsphysiology genome glycolysisgenetics govt histone iimetabolism information intergenicmetabolism mappingmethods non-phs non-us open physical polymerase promoter protein proteins proteinsgenetics proteinsmetabolism reading regions regulationphysiology regulator research ribosomal rna saccharomyces silent sirtuins sitesgenetics support telomeremetabolism trans-activatorsmetabolism us bibtex-import by blobbybirdman on 2007-10-09 17:56:26 as **
  • Transcription regulation and animal diversity
    Nature, Vol. 424, No. 6945. (2003), pp. 147-51.
    by M Levine, R Tjian
    posted to acid animals chromatinphysiology dna ecosystem expression factorsphysiology gene genetic govt human nucleic phs regulation regulatory sequences support transcription us bibtex-import by blobbybirdman on 2007-10-09 17:56:26 as **
  • Diversity and specificity in transcriptional regulation: the benefits of heterotypic dimerization
    Trends Biochem Sci, Vol. 16, No. 11. (1991), pp. 417-22.
    by P Lamb, SL Mcknight
    posted to acid amino animals base data dna-binding expression gene genetic molecular proteinsgenetics regulation sequence transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:26 as **
  • Chromatin structure and transcription
    Annu Rev Cell Biol, Vol. 8 (1992), pp. 563-87.
    by RD Kornberg, Y Lorch
    posted to acid animals binding cerevisiaegeneticsmetabolism chromatinmetabolismultrastructure conformation dna-binding dnagenetics expression factorsmetabolism fungal gene genes genetic genetics histoneschemistry mammary models molecular mousegenetics nucleic nucleosomesultrastructure promoter protein proteinsgeneticsmetabolism proteinsmetabolism regions regulation regulatory repetitive saccharomyces sequences structural transcription tumor virus bibtex-import by blobbybirdman on 2007-10-09 17:56:25 as **
  • Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome
    Cell, Vol. 98, No. 3. (1999), pp. 285-94.
    by RD Kornberg, Y Lorch
    posted to animals cerevisiaegenetics chromosomesgenetics dna dnageneticsultrastructure expression gene genetic histonesmetabolismultrastructure human models molecular nucleosomesgeneticsphysiologyultrastructure regulation replication saccharomyces transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:25 as **
  • Transcription Regulatory Regions Database (TRRD):its status in 1999
    Nucleic Acids Res, Vol. 27, No. 1. (1999), pp. 303-6.
    by NA Kolchanov, EA Ananko, OA Podkolodnaya, EV Ignatieva, IL Stepanenko, Kel OV Margoulis, AE Kel, TI Merkulova, TN Goryachkovskaya, TV Busygina, FA Kolpakov, NL Podkolodny, AN Naumochkin, AG Romashchenko
    posted to acidgenetics and animals base binding cell cells databases elements elementsgenetics enhancer eukaryotic expression factorsgenetics factualtrends gene geneticgenetics geneticsgenetics glutathione govt information interface internet line mice non-us nucleic organ peroxidasegenetics promoter regions regulationgenetics regulatory response retrieval russia sequence sequences sites specificity storage support transcription user-computer bibtex-import by blobbybirdman on 2007-10-09 17:56:25 as **
  • Direct study of DNA-protein interactions in repressed and active chromatin in living cells
    Embo J, Vol. 15, No. 22. (1996), pp. 6290-300.
    by MP Kladde, M Xu, RT Simpson
    posted to cerevisiaemetabolism chain chromatinchemistry cytosinemetabolism cytosine-specificmetabolism dna dna-binding dnametabolism estrogenmetabolism estrogenspharmacology expression footprinting gene geneticsgenetics govt methylation methyltransferase nucleosomesmetabolism phs polymerase promoter proteinsgenetics proteinsmetabolism reaction receptors regions regulationgenetics repressor research saccharomyces site-specific support us bibtex-import by blobbybirdman on 2007-10-09 17:56:25 as **
  • Sequencing and comparison of yeast species to identify genes and regulatory elements
    Nature, Vol. 423, No. 6937. (2003), pp. 241-54.
    by M Kellis, N Patterson, M Endrizzi, B Birren, ES Lander
    posted to acidgenetics alignment analysis base binding cerevisiae cerevisiaegenetics comparative conserved data dna elementsgenetics evolution expression factorsmetabolism framesgenetics fungal fungalgenetics gene genes genome genomics humans intronsgenetics molecular nucleic open proteinschemistrygenetics proteinsmetabolism reading regulation regulatory response saccharomyces saccharomycesgenetics sequence sequencegenetics sequences sites species specificity study transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:24 as **
  • Identification of regulatory elements using a feature selection method
    Bioinformatics, Vol. 18, No. 9. (2002), pp. 1167-75.
    by S Keles, M van der Laan, MB Eisen
    posted to acid amino analysis analysismethods and array