新規登録 | ログイン | FAQ      [?] 

タグ: cis_regulatory_elements [91 articles]

Recent papers classified by the tag cis_regulatory_elements.
  • Characterization of the Duffy gene promoter: evidence for tissue-specific abolishment of expression in Fy(a-b-) of black individuals.
    Biochem Biophys Res Commun, Vol. 222, No. 3. (24 May 1996), pp. 852-859.
    by S Iwamoto, J Li, N Sugimoto, H Okuda, E Kajii
    posted to cis_regulatory_elements expression_divergence expression_pattern expression_polymorphism human modularity regulatory_evolution regulatory_sequence_evolution by dpollard to the group EisenLab on 2007-12-05 23:03:10 as *** along with 1 group 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 to the group EisenLab on 2007-12-05 22:53:19 as *** along with 1 group 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 to the group EisenLab on 2007-12-05 22:51:02 as *** along with 1 group cis-regulatory-evolution
  • PAZAR: a framework for collection and dissemination of cis-regulatory sequence annotation
    Genome Biology, Vol. 8 (04 October 2007), R207.
    by Elodie Portales-Casamar, Stefan Kirov, Jonathan Lim, Stuart Lithwick, Magdalena I Swanson, Amy Ticoll, Jay Snoddy, Wyeth W Wasserman
    posted to cis_regulatory_elements database by dpollard to the group EisenLab on 2007-10-25 01:54:33 as * along with 2 people and 2 groups cisevol pradiptaray cis-regulatory-evolution BergmanLab
  • 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 to the group EisenLab on 2007-10-31 22:40:43 as read along with 2 people and 1 group oannes lusk Regulomics_UCHSC
  • Dynamics and function of intron sequences of the wingless gene during the evolution of the Drosophila genus.
    Evol Dev, Vol. 6, No. 5. (t 2004), pp. 325-335.
    by J Costas, PS Pereira, CP Vieira, S Pinho, J Vieira, F Casares
    posted to cis_regulatory_elements drosophila expression_divergence expression_pattern turnover by dpollard to the group EisenLab on 2007-11-21 01:23:45 as read along with 1 group cis-regulatory-evolution
  • A phylogenetic Gibbs sampler that yields centroid solutions for cis regulatory site prediction.
    Bioinformatics (8 May 2007)
    by Lee A A Newberg, William A A Thompson, Sean Conlan, Thomas M M Smith, Lee Ann A McCue, Charles E E Lawrence
    posted to prediction motif method discovery clustering cis_regulatory_elements by dpollard to the group EisenLab on 2007-05-23 00:29:25 as ** along with 3 people cjeans sconlan siebert
  • Computational methods for transcriptional regulation.
    Curr Opin Genet Dev, Vol. 15, No. 2. (April 2005), pp. 214-221.
    by ED Siggia
    posted to cis_regulatory_elements gene_expression method prediction by dpollard to the group EisenLab on 2007-03-15 00:30:41 as *** along with 7 people and 1 group barry koller bertelsen Borelli nklee balicea jjray Bioinformatics
  • MORPH: Probabilistic Alignment Combined with Hidden Markov Models of cis-Regulatory Modules
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e216.
    by Saurabh Sinha, Xin He
    posted to alignment alignment_accuracy binding_site_alignment brant_presented cis_regulatory_elements eisen_journal_club method round_robin by dpollard to the group EisenLab on 2007-11-16 23:53:34 as **** along with 7 people and 1 group ana cjeans zwang maximilianh hpaces Ema uwe cis-regulatory-evolution
  • Transcriptional regulatory code of a eukaryotic genome
    Nature, Vol. 431, No. 7004. (2004), pp. 99-104.
    by Christopher T Harbison, Benjamin D Gordon, Tong I Lee, Nicola J Rinaldi, Kenzie D Macisaac, Timothy W Danford, Nancy M Hannett, Jean-Bosco Tagne, David B Reynolds, Jane Yoo, Ezra G Jennings, Julia Zeitlinger, Dmitry K Pokholok, Manolis Kellis, Alex P Rolfe, Ken T Takusagawa, Eric S Lander, David K Gifford, Ernest Fraenkel, Richard A Young
    posted to chip_chip cis_regulatory_elements yeast by dpollard to the group EisenLab on 2007-12-04 00:29:15 as read along with 24 people and 7 groups alokm tuck chad_davis lyongu kaspermunch balicea kt dchughes nirfriedman cmm nickluscombe kengg gespim koller lusk nklee cisevol njcitulike xili03 brant mariakmejia kristallreiner snow_dragon aalibes Bioinformatics FAB-lab G4ID EBI-regulation Plantandetc Genetics-of-Gambling BergmanLab
  • An equilibrium partitioning model connecting gene expression and cis-motif content
    Bioinformatics, Vol. 22, No. 14. (15 July 2006), pp. e368-374.
    by Joe Mellor, Charles Delisi
    posted to cis_regulatory_elements expression_pattern modeling by dpollard to the group EisenLab on 2007-11-05 22:10:49 as ** along with 1 person yevishere
  • Histone replacement marks the boundaries of cis-regulatory domains.
    Science, Vol. 315, No. 5817. (9 March 2007), pp. 1408-1411.
    by Y Mito, JG Henikoff, S Henikoff
    posted to round_robin rich_presented nucleosome in_depth_suggestion eisen_journal_club dynamics cis_regulatory_elements by dpollard to the group EisenLab on 2007-03-16 20:42:42 as *** along with 3 people olympos epigenetics bpcusack
  • Reverse Engineering the Gap Gene Network of Drosophila melanogaster
    PLoS Computational Biology, Vol. 2, No. 5. (1 May 2006), e51.
    by Theodore J Perkins, Johannes Jaeger, John Reinitz, Leon Glass
    posted to cis_regulatory_elements drosophila embryonic_patterning expression_pattern modeling network by brant to the group EisenLab on 2006-09-27 20:03:50 as *** along with 2 people emilyhare adepace
  • Programming gene expression with combinatorial promoters
    Mol Syst Biol, Vol. 3 (13 November 2007)
    by Robert S Cox, Michael G Surette, Michael B Elowitz
    posted to cis_regulatory_elements eisen_journal_club grammar rich_presented round_robin by dpollard to the group EisenLab on 2007-11-16 23:56:56 as ** along with 14 people and 1 group Retchless tmmurali austin balicea kengg dbikard margaritis lusk cjeans zwang discreteonyxorb cabbagezs Ema tresch SynBioSys
  • Cis-Regulatory Elements in the Accord Retrotransposon Result in Tissue-Specific Expression of the Drosophila melanogaster Insecticide Resistance Gene Cyp6g1
    Genetics, Vol. 175, No. 3. (1 March 2007), pp. 1071-1077.
    by Henry Chung, Michael R Bogwitz, Caroline Mccart, Alex Andrianopoulos, Richard H Ffrench-Constant, Philip Batterham, Phillip J Daborn
    posted to transposable_elements tissue_specific expression drosophila cis_regulatory_elements by dpollard to the group EisenLab on 2007-03-26 07:55:30 as ** along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Quantitative models of developmental pattern formation.
    Dev Cell, Vol. 11, No. 3. (September 2006), pp. 289-300.
    by GT Reeves, CB Muratov, T Schüpbach, SY Shvartsman
    posted to cis_regulatory_elements development expression_pattern modeling review by brant to the group EisenLab on 2006-09-14 07:47:08 as *** along with 1 person dpollard
  • Dominant gain-of-function mutations that lead to misregulation of the C. elegans heterochronic gene lin-14, and the evolutionary implications of dominant mutations in pattern-formation genes.
    Dev Suppl, Vol. 1 (1991), pp. 47-54.
    by G Ruvkun, B Wightman, T Bürglin, P Arasu
    posted to cis_regulatory_elements co_dominance dominance nematode semi_dominance seminal_paper by dpollard to the group EisenLab on 2007-11-26 00:38:21 as ***
  • 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 prediction method cis_regulatory_elements by dpollard to the group EisenLab on 2007-05-31 23:16:30 as ** along with 2 people adepace ajgentles
  • From gradients to stripes in Drosophila embryogenesis: filling in the gaps
    Trends in Genetics, Vol. 12, No. 11. (November 1996), pp. 478-483.
    by Rolando Rivera-Pomar, Herbert Jackle
    posted to cis_regulatory_elements drosophila embryonic_patterning expression_pattern modeling by dpollard to the group EisenLab on 2007-11-05 21:21:07 as **
  • 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 mammal in_depth_suggestion eisen_journal_club conservation comparative_genomics cis_regulatory_elements binding_site by dpollard to the group EisenLab on 2007-06-14 23:45:44 as ** along with 3 people and 1 group andersbj dorotagospodarczyk maralena microRNA
  • 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 to the group EisenLab on 2007-03-15 00:24:34 as *** along with 6 people and 1 group troels_marstrand kaspermunch adepace lusk Stew brant Bioinformatics
  • 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 to the group EisenLab on 2007-11-26 00:28:07 as read
  • Transcriptional regulation by the numbers: applications.
    Curr Opin Genet Dev, Vol. 15, No. 2. (April 2005), pp. 125-135.
    by L Bintu, NE Buchler, HG Garcia, U Gerland, T Hwa, J Kondev, T Kuhlman, R Phillips
    posted to cis_regulatory_elements expression_pattern modeling by dpollard to the group EisenLab on 2007-11-05 21:14:35 as ** along with 5 people imouthesmp madhadron dquest discreteonyxorb ihpark
  • Gradients and thresholds: BMP response gradients unveiled in Drosophila embryos
    Trends in Genetics, Vol. 19, No. 12. (December 2003), pp. 701-708.
    by Laurel A Raftery, David J Sutherland
    posted to cis_regulatory_elements drosophila embryonic_patterning expression_pattern modeling by dpollard to the group EisenLab on 2007-11-05 21:19:39 as **
  • CisModule: de novo discovery of cis-regulatory modules by hierarchical mixture modeling.
    Proc Natl Acad Sci U S A, Vol. 101, No. 33. (17 August 2004), pp. 12114-12119.
    by Q Zhou, WH Wong
    posted to ab_initio cis_regulatory_elements clustering method prediction by dpollard to the group EisenLab on 2007-12-05 22:46:33 as read along with 2 people indigoviolet ep161302
  • Large-scale analysis of transcriptional cis-regulatory modules reveals both common features and distinct subclasses
    Genome Biology, Vol. 8 (05 June 2007), R101.
    by Long Li, Qianqian Zhu, Xin He, Saurabh Sinha, Marc S Halfon
    posted to round_robin regulatory_sequence_evolution enhancer eisen_journal_club drosophila crm cis_regulatory_elements angela_presented by dpollard to the group EisenLab on 2007-07-02 21:12:58 as *** along with 4 people lusk cjeans maximilianh isimpson
  • Smad Affinity Can Direct Distinct Readouts of the Embryonic Extracellular Dpp Gradient in Drosophila
    Current Biology, Vol. 14, No. 17. (7 September 2004), pp. 1550-1558.
    by Stephen J Wharton, Sanjay P Basu, Hilary L Ashe
    posted to cis_regulatory_elements expression_pattern modeling by dpollard to the group EisenLab on 2007-11-05 21:13:34 as **
  • 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 prediction method clustering cis_regulatory_elements binding_site by dpollard to the group EisenLab on 2007-05-23 01:10:50 as **
  • Functional Architecture and Evolution of Transcriptional Elements That Drive Gene Coexpression
    Science, Vol. 317, No. 5844. (14 September 2007), pp. 1557-1560.
    by Christopher D Brown, David S Johnson, Arend Sidow
    posted to cis_regulatory_elements colin_presented conservation eisen_journal_club grammar in_depth regulatory_evolution round_robin stew_presented by dpollard to the group EisenLab on 2007-10-29 18:57:23 as *** along with 9 people and 1 group djkt joepickrell zwang Garamonfok Stew mimulus_99 maximilianh cisevol emptyhb cis-regulatory-evolution
  • The identification and functional characterisation of conserved regulatory elements in developmental genes.
    Brief Funct Genomic Proteomic, Vol. 3, No. 4. (February 2005), pp. 332-350.
    by T Dickmeis, F Müller
    posted to cis_regulatory_elements conserved development prediction regulatory_sequence transcription_factor by dpollard to the group EisenLab on 2007-03-15 00:27:26 as *** along with 1 person brant
  • Colloquium Papers: Emerging principles of regulatory evolution.
    Proc Natl Acad Sci U S A, Vol. 104 Suppl 1 (15 May 2007), pp. 8605-8612.
    by B Prud'homme, N Gompel, SB Carroll
    posted to review regulatory_evolution evolution cis_regulatory_elements by dpollard to the group EisenLab on 2007-06-14 23:47:29 as *** along with 3 people and 1 group blobbybirdman cisevol emptyhb cis-regulatory-evolution
  • 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 to the group EisenLab on 2007-10-31 21:26:00 as **
  • Reliable prediction of regulator targets using 12 Drosophila genomes.
    Genome Res (7 November 2007)
    by Alexander Stark, Pouya Kheradpour, Sushmita Roy, Manolis Kellis
    posted to cis_regulatory_elements drosophila eisen_journal_club matt_presented prediction round_robin by dpollard to the group EisenLab on 2007-11-17 00:01:35 as *** along with 7 people and 1 group lp2 nklee maximilianh roys caseybrown emptyhb barwil cis-regulatory-evolution
  • A Survey of Genomic Properties for the Detection of Regulatory Polymorphisms
    PLoS Computational Biology, Vol. 3, No. 6. (1 June 2007), e106.
    by Stephen B Montgomery, Obi L Griffith, Johanna M Schuetz, Angela Brooks-Wilson, Steven J Jones
    posted to venky_presented snp sequence_properties round_robin regulatory_polymorphism prediction eisen_journal_club cis_regulatory_elements by dpollard to the group EisenLab on 2007-06-15 22:54:33 as *** along with 1 person and 2 groups cisevol Bioinformatics cis-regulatory-evolution
  • Modeling DNA-binding of Escherichia coli sigma70 exhibits a characteristic energy landscape around strong promoters
    Nucl. Acids Res. (16 October 2007), gkm720.
    by Johanna Weindl, Pavol Hanus, Zaher Dawy, Juergen Zech, Joachim Hagenauer, Jakob C Mueller
    posted to bacteria cis_regulatory_elements energy_landscape promoter by dpollard to the group EisenLab on 2007-10-25 01:24:56 as ** along with 2 people operon maximilianh
  • The stars and stripes of animal bodies: evolution of regulatory elements mediating pigment and bristle patterns in Drosophila.
    Trends Genet (10 May 2007)
    by Pat Simpson
    posted to review morphological_evolution drosophila cis_regulatory_elements by dpollard to the group EisenLab on 2007-06-13 22:25:39 as **
  • Functional diversification of sonic hedgehog paralog enhancers identified by phylogenomic reconstruction
    Genome Biology, Vol. 8 (08 June 2007), R106.
    by Yavor Hadzhiev, Michael Lang, Raymond Ertzer, Axel Meyer, Uwe Straehle, Ferenc Mueller
    posted to round_robin rich_presented regulatory_sequence_evolution regulatory_evolution in_depth_suggestion grammar eisen_journal_club crm cis_regulatory_elements by dpollard to the group EisenLab on 2007-08-01 22:37:08 as ** along with 2 people and 1 group cjeans cisevol cis-regulatory-evolution
  • 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 prediction drosophila crm cis_regulatory_elements binding_site by dpollard to the group EisenLab on 2007-06-13 22:20:42 as ***
  • 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 to the group EisenLab on 2007-11-21 01:22:24 as read along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Making connections: boundaries and insulators in Drosophila.
    Curr Opin Genet Dev (26 September 2007)
    by Robert K K Maeda, François Karch
    posted to chromatin chromatin_modification cis_regulatory_elements drosophila insulators by dpollard to the group EisenLab on 2007-10-25 02:15:41 as ** along with 1 person dchughes
  • Levers and fulcrums: progress in cis-regulatory motif models
    Nature Methods, Vol. 5, No. 4., pp. 297-298.
    by Ewan Birney
    posted to cis_regulatory_elements modeling_gene_network by emptyhb on 2008-05-16 00:34:33 as ** along with 3 people and 3 groups stajich pradiptaray isimpson EisenLab Berkeley Mycology Jarman Lab
  • The Drosophila even-skipped promoter is transcribed in a stage-specific manner in vitro and contains multiple, overlapping factor-binding sites.
    Mol. Cell. Biol., Vol. 10, No. 8. (1 August 1990), pp. 4334-4344.
    by D Read, T Nishigaki, JL Manley
    posted to cis_regulatory_elements drosophila even-skipped_enhancer by emptyhb on 2008-02-28 17:24:23 as **
  • Extensive low-affinity transcriptional interactions in the yeast genome.
    Genome Res (29 June 2006)
    by Amos Tanay
    posted to cis_regulatory_elements motif_searching statistical_method by emptyhb on 2008-01-21 23:32:43 as ** along with 6 people and 1 group devin indigoviolet dpollard balicea koller lusk EisenLab
  • Ultraconservation identifies a small subset of extremely constrained developmental enhancers.
    Nat Genet (6 January 2008)
    by Axel Visel, Shyam Prabhakar, Jennifer A A Akiyama, Malak Shoukry, Keith D D Lewis, Amy Holt, Ingrid Plajzer-Frick, Veena Afzal, Edward M M Rubin, Len A A Pennacchio
    posted to cis_regulatory_elements by emptyhb on 2008-02-26 03:36:27 as ** along with 5 people Stew maximilianh gjuggler bpcusack isimpson
  • 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 cis_regulatory_elements drosophila motif_searching by emptyhb on 2008-03-24 21:22:51 as ** along with 6 people and 1 group indigoviolet dpollard dquest SeungjoonOh nklee isimpson EisenLab
  • notes Conservation of regulatory elements between two species of Drosophila.
    BMC Bioinformatics, Vol. 4 (20 November 2003)
    by E Emberly, N Rajewsky, ED Siggia
    posted to cis_regulatory_elements cis_regulatory_evolution drosophila motif_searching by emptyhb on 2008-02-24 21:43:41 as *** along with 1 person and 1 group dquest Bioinformatics
  • notes Comparative genomics at the vertebrate extremes.
    Nat Rev Genet, Vol. 5, No. 6. (June 2004), pp. 456-465.
    by D Boffelli, MA Nobrega, EM Rubin
    posted to cis_regulatory_elements cis_regulatory_evolution review by emptyhb on 2008-04-14 05:25:41 as ***** along with 2 people olympos blobbybirdman
  • Quantitative specificity of the Mnt repressor.
    Journal of molecular biology, Vol. 271, No. 2. (15 August 1997), pp. 178-194.
    by DS Fields, Y He, AY Al-Uzri, GD Stormo
    posted to biophysics cis_regulatory_elements dna-protein_interaction by emptyhb on 2008-04-05 19:56:01 as **
  • Evolution of functionally conserved enhancers can be accelerated in large populations: a population-genetic model.
    Proc Biol Sci, Vol. 269, No. 1494. (7 May 2002), pp. 953-960.
    by AJ Carter, GP Wagner
    posted to binding_sites_turnover cis_regulatory_elements population_genetics_modeling by emptyhb on 2007-12-11 20:55:48 as *** along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Detecting natural selection on cis-regulatory DNA
    Genetica, Vol. 129, No. 1. (January 2007), pp. 7-18.
    by Hahn, Matthew
    posted to cis_regulatory_elements detecting_selection population_genetics_modeling by emptyhb on 2007-12-31 17:57:54 as ** along with 2 people and 2 groups adepace cisevol EisenLab cis-regulatory-evolution
    • 注: このページを引用する時は次のURLでどうぞ: http://www.citeulike.org/tag/cis_regulatory_elements

    Result page: 1 2 Next RIS BibTeX
    CiteULike organises scholarly (or academic) papers or literature and provides bibliographic (which means it makes bibliographies) for universities and higher education establishments. It helps undergraduates and postgraduates. People studying for PhDs or in postdoctoral (postdoc) positions. The service is similar in scope to EndNote or RefWorks or any other reference manager like BibTeX, but it is a social bookmarking service for scientists and humanities researchers.