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dpollards binding_site [31 articles]

Neue Publikationen in dpollards Bibliothek eingetragen unter dem Bezeichner: binding_site. You can also see everyone's binding_site.
  • Using DNA duplex stability information for transcription factor binding site discovery.
    Pac Symp Biocomput (2008), pp. 453-464.
    by R Gordân, AJ Hartemink
    posted to binding_site biophysical_model method motif_detection prediction transcription_factor by dpollard on 2008-02-01 06:21:41 as ** along with 1 person and 1 group bootsy EisenLab
  • Use of an evolutionary model to provide evidence for a wide heterogeneity of required affinities between transcription factors and their binding sites in yeast.
    Pac Symp Biocomput (2008), pp. 489-500.
    by RW Lusk, MB Eisen
    posted to affinity binding_site transcription_factor variation yeast by dpollard on 2008-02-01 06:19:08 as read along with 1 person and 2 groups maximilianh EisenLab cis-regulatory-evolution
  • Ancient and Recent Positive Selection Transformed Opioid cis-Regulation in Humans.
    PLoS Biol, Vol. 3, No. 12. (15 November 2005)
    by Matthew V V Rockman, Matthew W W Hahn, Nicole Soranzo, Fritz Zimprich, David B B Goldstein, Gregory A A Wray
    posted to binding_site cis_regulatory_elements human regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:55:41 as read along with 7 people and 3 groups imouthesmp indigoviolet Archaeogenetics happy_manatee djkt mgaldzic cisevol EisenLab CHIP cis-regulatory-evolution
  • Detection of the signature of natural selection in humans: evidence from the Duffy blood group locus.
    Am J Hum Genet, Vol. 66, No. 5. (May 2000), pp. 1669-1679.
    by MT Hamblin, A Di Rienzo
    posted to binding_site cis_regulatory_elements regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:53:19 as *** along with 2 groups EisenLab cis-regulatory-evolution
  • Disruption of a GATA motif in the Duffy gene promoter abolishes erythroid gene expression in Duffy-negative individuals.
    Nat Genet, Vol. 10, No. 2. (June 1995), pp. 224-228.
    by C Tournamille, Y Colin, JP Cartron, C Le Van Kim
    posted to binding_site cis_regulatory_elements regulatory_evolution regulatory_polymorphism regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:51:01 as *** along with 2 groups EisenLab cis-regulatory-evolution
  • Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila.
    Nature, Vol. 433, No. 7025. (3 February 2005), pp. 481-487.
    by N Gompel, B Prud'homme, PJ Wittkopp, VA Kassner, SB Carroll
    posted to binding_site cis_regulatory_elements drosophila pigmentation regulatory_evolution regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:48:37 as read along with 4 people and 2 groups emilyhare adepace cisevol emptyhb EisenLab cis-regulatory-evolution
  • Regulation of Body Pigmentation by the Abdominal-B Hox Protein and Its Gain and Loss in Drosophila Evolution
    Cell, Vol. 125, No. 7. (30 June 2006), pp. 1387-1399.
    by Sangyun Jeong, Antonis Rokas, Sean B Carroll
    posted to binding_site cis_regulatory_elements pigmentation regulatory_evolution regulatory_sequence_evolution turnover by dpollard on 2007-12-05 22:44:47 as read along with 1 person and 2 groups emilyhare EisenLab cis-regulatory-evolution
  • Nucleotide sequence of an RNA polymerase binding site at an early T7 promoter.
    Proc Natl Acad Sci U S A, Vol. 72, No. 3. (March 1975), pp. 784-788.
    by D Pribnow
    posted to binding_site cis_regulatory_elements conservation seminal_paper by dpollard on 2007-11-26 00:28:07 as read along with 1 group EisenLab
  • Turnover of binding sites for transcription factors involved in early Drosophila development.
    Gene, Vol. 310 (22 May 2003), pp. 215-220.
    by J Costas, F Casares, J Vieira
    posted to binding_site cis_regulatory_elements drosophila turnover by dpollard on 2007-11-21 01:22:24 as read along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
  • Large-Scale Discovery of Promoter Motifs in Drosophila melanogaster
    PLoS Computational Biology, Vol. 3, No. 1. (1 January 2007), e7.
    by Thomas A Down, Casey M Bergman, Jing Su, Tim J Hubbard
    posted to binding_site cis_regulatory_elements drosophila motif_detection by dpollard on 2007-11-14 21:19:05 as read along with 5 people and 1 group indigoviolet dquest SeungjoonOh nklee emptyhb EisenLab
  • Discovery of Regulatory Elements by a Computational Method for Phylogenetic Footprinting
    Genome Res., Vol. 12, No. 5. (1 May 2002), pp. 739-748.
    by Mathieu Blanchette, Martin Tompa
    posted to ab_initio binding_site conservation method prediction by dpollard on 2007-11-01 00:41:11 as read along with 5 people and 2 groups chad_davis balajis lyongu dquest csdhwang EisenLab cis-regulatory-evolution
  • Regulatory element detection using correlation with expression.
    Nat Genet, Vol. 27, No. 2. (February 2001), pp. 167-171.
    by HJ Bussemaker, H Li, ED Siggia
    posted to ab_initio binding_site gene_expression prediction by dpollard on 2007-11-01 00:10:36 as read along with 2 people and 2 groups nickluscombe heliopais EisenLab EBI-regulation
  • Distance preferences in the arrangement of binding motifs and hierarchical levels in organization of transcription regulatory information.
    Nucleic Acids Res, Vol. 31, No. 20. (15 October 2003), pp. 6016-6026.
    by VJ Makeev, AP Lifanov, AG Nazina, DA Papatsenko
    posted to binding_site cis_regulatory_elements drosophila grammar helical_phasing by dpollard on 2007-10-31 22:40:43 as read along with 2 people and 2 groups oannes lusk EisenLab Regulomics_UCHSC
  • Interaction of Gal repressor with inducer and operator: induction of gal transcription from repressor-bound DNA.
    Proc Natl Acad Sci U S A, Vol. 94, No. 7. (1 April 1997), pp. 2957-2962.
    by S Chatterjee, YN Zhou, S Roy, S Adhya
    posted to binding_site cis_regulatory_elements grammar steric_repression yeast by dpollard on 2007-10-31 21:26:00 as ** along with 1 group EisenLab
  • Incorporating evolution of transcription factor binding sites into annotated alignments.
    J Biosci, Vol. 32, No. 5. (August 2007), pp. 841-850.
    by AS Bais, S Grossmann, M Vingron
    posted to alignment binding_site conserved method prediction by dpollard on 2007-10-25 02:20:56 as ** along with 1 person and 2 groups maximilianh EisenLab cis-regulatory-evolution
  • Systematic detection of statistically overrepresented DNA motif association rules.
    Genome Inform, Vol. 17, No. 1. (2006), pp. 124-133.
    by JM Lin, Z Weng
    posted to ab_initio binding_site eisen_journal_club method motif_detection prediction round_robin rules venky_presented by dpollard on 2007-06-15 00:04:13 as ** along with 1 person and 1 group indigoviolet EisenLab
  • Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome
    Genome Biology, Vol. 8 (16 May 2007), R84.
    by Shaun Mahony, David L Corcoran, Eleanor Feingold, Panayiotis V Benos
    posted to binding_site cis_regulatory_elements comparative_genomics conservation eisen_journal_club in_depth_suggestion mammal by dpollard on 2007-06-14 23:45:44 as ** along with 3 people and 2 groups andersbj dorotagospodarczyk maralena EisenLab microRNA
  • Binding Site Graphs: A New Graph Theoretical Framework for Prediction of Transcription Factor Binding Sites
    PLoS Computational Biology, Vol. 3, No. 5. (1 May 2007), e90.
    by Timothy E Reddy, Charles Delisi, Boris E Shakhnovich
    posted to ab_initio binding_site eisen_journal_club method motif round_robin venky_presented yeast by dpollard on 2007-06-14 23:38:43 as ** along with 5 people and 1 group aalibes medic0747 GustavoLacerda mircea marti EisenLab
  • Computational annotation of transcription factor binding sites in D. Melanogaster developmental genes.
    Genome Inform, Vol. 17, No. 2. (2006), pp. 14-24.
    by V Narang, WK Sung, A Mittal
    posted to binding_site cis_regulatory_elements crm drosophila prediction by dpollard on 2007-06-13 22:20:42 as *** along with 1 group EisenLab
  • Determination of local statistical significance of patterns in Markov sequences with application to promoter element identification.
    J Comput Biol, Vol. 11, No. 1. (2004), pp. 1-14.
    by H Huang, MC Kao, X Zhou, JS Liu, WH Wong
    posted to ab_initio binding_site eisen_journal_club markov method motif round_robin stuart_presented by dpollard on 2007-06-04 22:47:45 as * along with 1 person and 1 group jguinney EisenLab
  • Frequent Gain and Loss of Functional Transcription Factor Binding Sites
    PLoS Computational Biology, Vol. 3, No. 5. (1 May 2007), e99.
    by Scott W Doniger, Justin C Fay
    posted to binding_site dynamics eisen_journal_club rich_presented round_robin turnover yeast by dpollard on 2007-06-04 22:33:14 as *** along with 6 people and 2 groups brant sebastien_vigneau zwang maximilianh cisevol xili03 EisenLab cis-regulatory-evolution
  • SPACER: identification of cis-regulatory elements with non-contiguous critical residues.
    Bioinformatics, Vol. 23, No. 8. (15 April 2007), pp. 1029-1031.
    by A Chakravarty, JM Carlson, RS Khetani, CE DeZiel, RH Gross
    posted to binding_site cis_regulatory_elements clustering method prediction by dpollard on 2007-05-23 01:10:50 as ** along with 1 group EisenLab
  • A stochastic model for the evolution of transcription factor binding site abundance.
    J Theor Biol (7 March 2007)
    by Günter P P Wagner, Wolfgang Otto, Vincent Lynch, Peter F F Stadler
    posted to binding_site model turnover by dpollard on 2007-05-23 01:02:56 as ***** along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
  • Mining of putative cis-acting elements for chromatin mediated regulation of Hox genes in mammals by in-silico analysis.
    J Exp Zoolog B Mol Dev Evol (14 March 2007)
    by Hemant Bengani, Mythily Ganapathi, Gajinder Pal P Singh, Vani Brahmachari
    posted to binding_site conserved drosophila hox vertibrates by dpollard on 2007-03-22 23:14:58 as * along with 1 person and 1 group blobbybirdman EisenLab
  • Prediction of cis-regulatory elements using binding site matrices--the successes, the failures and the reasons for both.
    Curr Opin Genet Dev, Vol. 15, No. 4. (August 2005), pp. 395-402.
    by T Vavouri, G Elgar
    posted to binding_site cis_regulatory_elements method motif pattern prediction pwm regulatory_sequence by dpollard on 2007-03-15 00:24:34 as *** along with 6 people and 2 groups brant troels_marstrand kaspermunch adepace lusk Stew Bioinformatics EisenLab
  • Conserved sequences and the evolution of gene regulatory signals.
    Curr Opin Genet Dev, Vol. 15, No. 6. (December 2005), pp. 628-633.
    by MD Adams
    posted to binding_site evolution regulatory_sequence transcription_factor turnover variation by dpollard on 2007-03-15 00:22:24 as *** along with 2 people and 1 group cconboy lusk EisenLab
  • Structure-based prediction of C2H2 zinc-finger binding specificity: sensitivity to docking geometry.
    Nucleic Acids Res (30 January 2007)
    by Trevor W W Siggers, Barry Honig
    posted to affinity binding_site dan_presented eisen_journal_club prediction round_robin structure transcription_factor by dpollard on 2007-02-09 01:34:13 as read along with 1 person and 1 group aalibes EisenLab
  • Dorsal gradient networks in the Drosophila embryo.
    Dev Biol, Vol. 246, No. 1. (1 June 2002), pp. 57-67.
    by A Stathopoulos, M Levine
    posted to gradient binding_site affinity by dpollard on 2007-02-05 20:05:59 as ** along with 1 group EisenLab
  • A SNP in a half-binding site creates p53 and estrogen receptor control of VEGFR-1.
    Mol Cell Biol (22 January 2007)
    by Daniel Menendez, Alberto Inga, Joyce Snipe, Oliver Krysiak, Gilbert Schönfelder, Michael A A Resnick
    posted to transcription polymorphism binding_site by dpollard on 2007-02-01 19:55:01 as ** along with 1 person and 2 groups cisevol EisenLab cis-regulatory-evolution
  • Simultaneous alignment and annotation of cis-regulatory regions.
    Bioinformatics, Vol. 23, No. 2. (15 January 2007)
    by AS Bais, S Grossmann, M Vingron
    posted to prediction binding_site alignment by dpollard on 2007-02-01 19:45:23 as ** along with 2 people and 1 group indigoviolet bluto EisenLab
  • PhyloScan: Identification of transcription factor binding sites using cross-species evidence
    Algorithms for Molecular Biology, Vol. 2 (23 January 2007), 1.
    by Steven C Carmack, Lee A Mccue, Lee A Newberg, Charles E Lawrence
    posted to prediction phylogeny comparative binding_site by dpollard on 2007-02-01 19:41:57 as ** along with 3 people and 1 group dquest lusk nklee EisenLab
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