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di emptyhb cis_regulatory_evolution [56 articles]

Articoli aggiunti di recente alla biblioteca di emptyhb classificati sotto il tag cis_regulatory_evolution. You can also see everyone's cis_regulatory_evolution.
  • Evolution of yellow Gene Regulation and Pigmentation in Drosophila
    Current Biology, Vol. 12, No. 18. (17 September 2002), pp. 1547-1556.
    by Patricia J Wittkopp, Kathy Vaccaro, Sean B Carroll
    posted to drosophila cis_regulatory_evolution by emptyhb on 2008-08-22 16:38:10 as **
  • Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution.
    Genome Res, Vol. 15, No. 1. (January 2005), pp. 1-18.
    by S Richards, Y Liu, BR Bettencourt, P Hradecky, S Letovsky, R Nielsen, K Thornton, MJ Hubisz, R Chen, RP Meisel, O Couronne, S Hua, MA Smith, P Zhang, J Liu, HJ Bussemaker, MF van Batenburg, SL Howells, SE Scherer, E Sodergren, BB Matthews, MA Crosby, AJ Schroeder, D Ortiz-Barrientos, CM Rives, ML Metzker, DM Muzny, G Scott, D Steffen, DA Wheeler, KC Worley, P Havlak, KJ Durbin, A Egan, R Gill, J Hume, MB Morgan, G Miner, C Hamilton, Y Huang, L Waldron, D Verduzco, KP Clerc-Blankenburg, I Dubchak, MA Noor, W Anderson, KP White, AG Clark, SW Schaeffer, W Gelbart, GM Weinstock, RA Gibbs
    posted to drosophila cis_regulatory_evolution by emptyhb on 2008-08-22 15:40:54 as ** along with 9 people and 3 groups skumagai briann tsackton jshapiro operon indigoviolet penka adepace cisevol EisenLab Nie cis-regulatory-evolution
  • Rationalization of gene regulation by a eukaryotic transcription factor: calculation of regulatory region occupancy from predicted binding affinities.
    Journal of molecular biology, Vol. 323, No. 1. (11 October 2002), pp. 1-8.
    by X Liu, ND Clarke
    posted to dna-protein_interaction cis_regulatory_evolution by emptyhb on 2008-08-11 21:13:28 as **
  • Functional tests of enhancer conservation between distantly related species.
    Development, Vol. 130, No. 21. (November 2003), pp. 5133-5142.
    by I Ruvinsky, G Ruvkun
    posted to cis_regulatory_evolution binding_sites_turnover by emptyhb on 2008-08-07 02:56:14 as ** along with 3 people and 1 group mikaelhuss maximilianh cisevol cis-regulatory-evolution
  • Genomic Inferences of the cis-Regulatory Nucleotide Polymorphisms Underlying Gene Expression Differences between Drosophila melanogaster Mating Races.
    Mol Biol Evol (5 June 2006)
    by Naoki Osada, Michael H H Kohn, Chung-I I Wu
    posted to expression drosophila cis_regulatory_evolution by emptyhb on 2008-07-25 19:19:24 as ** along with 4 people and 1 group dpollard emilyhare adepace natstreet 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 cis_regulatory_evolution binding_sites_turnover by emptyhb on 2008-07-22 21:10:30 as ** along with 7 people and 2 groups brant dpollard sebastien_vigneau zwang maximilianh cisevol xili03 EisenLab cis-regulatory-evolution
  • Functional Analysis of Repressor Binding Sites in the iab-2 Regulatory Region of the abdominal-A Homeotic Gene
    Developmental Biology, Vol. 218, No. 1. (1 February 2000), pp. 38-52.
    by Mary J Shimell, Aidan J Peterson, John Burr, Jeffrey A Simon, Michael B O'Connor
    posted to function_study experimental_method drosophila cis_regulatory_evolution cis_regulatory_elements by emptyhb on 2008-07-10 16:44:44 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 transcriptional_regulation cis_regulatory_evolution by emptyhb on 2008-07-04 17:41:06 as ** along with 9 people and 2 groups dpollard djkt joepickrell zwang Garamonfok Stew mimulus_99 maximilianh cisevol EisenLab cis-regulatory-evolution
  • Coordination of a Transcriptional Switch by HMGI(Y) Acetylation
    Science, Vol. 293, No. 5532. (10 August 2001), pp. 1133-1136.
    by Nikhil Munshi, Theodora Agalioti, Stavros Lomvardas, Menie Merika, Guoying Chen, Dimitris Thanos
    posted to transcriptional_regulation dna-protein_interaction cis_regulatory_evolution by emptyhb on 2008-07-03 23:30:10 as **
  • An Atomic Model of the Interferon-[beta] Enhanceosome
    Cell, Vol. 129, No. 6. (15 June 2007), pp. 1111-1123.
    by Daniel Panne, Tom Maniatis, Stephen C Harrison
    posted to transcriptional_regulation dna-protein_interaction cis_regulatory_evolution by emptyhb on 2008-07-03 23:26:56 as **
  • Sepsid even-skipped Enhancers Are Functionally Conserved in Drosophila Despite Lack of Sequence Conservation
    PLoS Genet, Vol. 4, No. 6. (27 June 2008), e1000106.
    by Emily E Hare, Brant K Peterson, Venky N Iyer, Rudolf Meier, Michael B Eisen
    posted to function_study even-skipped_enhancer cis_regulatory_evolution binding_sites_turnover by emptyhb on 2008-07-02 21:31:18 as ** along with 5 people and 2 groups pradiptaray cisevol caseybrown stajich djkt cis-regulatory-evolution Berkeley Mycology
  • A Test of the Null Model for 5' UTR Evolution Based on GC Content
    Mol Biol Evol, Vol. 25, No. 5. (1 May 2008), pp. 801-804.
    by Max Reuter, Jan Engelstadter, Pierre Fontanillas, Laurence D Hurst
    posted to cis_regulatory_evolution by emptyhb on 2008-06-04 00:33:22 as ** along with 1 person djkt
  • The evolution of transcription-initiation sites.
    Mol Biol Evol, Vol. 22, No. 4. (April 2005), pp. 1137-1146.
    by M Lynch, DG Scofield, X Hong
    posted to transcriptional_regulation cis_regulatory_evolution by emptyhb on 2008-06-04 00:30:07 as ** along with 1 person madhadron
  • The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans
    Nature Genetics, Vol. 37, No. 5. (24 April 2005), pp. 544-548.
    by Dee R Denver, Krystalynne Morris, Todd T Streelman, Stuart K Kim, Michael Lynch, Kelley K Thomas
    posted to transcriptional_regulation natural_selection cis_regulatory_evolution by emptyhb on 2008-06-04 00:29:45 as ** along with 2 people rklancer mimulus_99
  • Evolutionary developmental biology and the problem of variation.
    Evolution Int J Org Evolution, Vol. 54, No. 4. (August 2000), pp. 1079-1091.
    by DL Stern
    posted to review phenotype natural_selection cis_regulatory_evolution by emptyhb on 2008-05-19 15:57:15 as ** along with 1 person and 1 group stevanspringer FAB-lab
  • Evolution of alternative transcriptional circuits with identical logic
    Nature, Vol. 443, No. 7110. (2006), pp. 415-420.
    by Annie E Tsong, Brian B Tuch, Hao Li, Alexander D Johnson
    posted to transcriptional_regulation cis_regulatory_evolution by emptyhb on 2008-05-14 20:24:06 as ** along with 6 people and 4 groups marcius brant adepace aswin srfairclough cisevol EisenLab BioinfoCIPF SGU-CIPF cis-regulatory-evolution
  • Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments
    BMC Bioinformatics, Vol. 7 (14 August 2006), 376.
    by Daniel A Pollard, Alan M Moses, Venky N Iyer, Michael B Eisen
    posted to cis_regulatory_evolution by emptyhb on 2008-05-10 22:02:25 as ** along with 6 people and 2 groups aprasad dpollard lusk Garamonfok lilou cisevol EisenLab cis-regulatory-evolution
  • Large-scale turnover of functional transcription factor binding sites in Drosophila.
    PLoS Comput Biol, Vol. 2, No. 10. (October 2006)
    by AM Moses, DA Pollard, DA Nix, VN Iyer, XY Li, MD Biggin, MB Eisen
    posted to in-vivo_binding_sites drosophila cis_regulatory_evolution binding_sites_turnover by emptyhb on 2008-05-07 16:22:30 as ** along with 5 people and 2 groups adepace eukfn lusk maximilianh cisevol EisenLab cis-regulatory-evolution
  • Position specific variation in the rate of evolution in transcription factor binding sites.
    BMC Evol Biol, Vol. 3, No. 1. (28 August 2003)
    by AM Moses, DY Chiang, M Kellis, ES Lander, MB Eisen
    posted to detecting_selection cis_regulatory_evolution by emptyhb on 2008-05-06 23:31:33 as ** along with 6 people and 2 groups briann dpollard adepace lusk nklee cisevol EisenLab cis-regulatory-evolution
  • Sequence turnover and tandem repeats in cis-regulatory modules in drosophila.
    Mol Biol Evol, Vol. 22, No. 4. (April 2005), pp. 874-885.
    by S Sinha, ED Siggia
    posted to drosophila cis_regulatory_evolution by emptyhb on 2008-05-06 21:33:36 as ** along with 2 people and 1 group operon cisevol cis-regulatory-evolution
  • Evolution of cis-regulatory sequence and function in Diptera
    Heredity, Vol. aop, No. current.
    by PJ Wittkopp,
    posted to review cis_regulatory_evolution by emptyhb on 2008-05-04 03:12:00 as ** along with 5 people and 2 groups indigoviolet dpollard adepace emmahe cisevol EisenLab cis-regulatory-evolution
  • The Evolution of Transcriptional Regulation in Eukaryotes
    Mol Biol Evol, Vol. 20, No. 9. (1 September 2003), pp. 1377-1419.
    by Gregory A Wray, Matthew W Hahn, Ehab Abouheif, James P Balhoff, Margaret Pizer, Matthew V Rockman, Laura A Romano
    posted to transcriptional_regulation review cis_regulatory_evolution by emptyhb on 2008-05-04 02:31:57 as ** along with 8 people and 5 groups emmahe ana dpollard adepace nickluscombe anatiferous mimulus_99 cisevol structural_bioinformatics Bioinformatics EisenLab EBI-regulation cis-regulatory-evolution
  • The evolutionary significance of cis-regulatory mutations
    Nature Reviews Genetics, Vol. 8, No. 3., pp. 206-216.
    by Gregory A Wray
    posted to review cis_regulatory_evolution by emptyhb on 2008-05-04 02:30:59 as ** along with 6 people and 4 groups brant dpollard dchughes lusk mimulus_99 cisevol EisenLab G4ID Genetics-of-Gambling cis-regulatory-evolution
  • Possibility of extensive neutral evolution under stabilizing selection with special reference to nonrandom usage of synonymous codons.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 78, No. 9. (September 1981), pp. 5773-5777.
    by M Kimura
    posted to population_genetics_modeling cis_regulatory_evolution by emptyhb on 2008-05-01 00:22:32 as **
  • Evolutionary population genetics of promoters: Predicting binding sites and functional phylogenies.
    Proc Natl Acad Sci U S A, Vol. 102, No. 44. (1 November 2005), pp. 15936-15941.
    by V Mustonen, M Lässig
    posted to statistical_method population_genetics_modeling cis_regulatory_evolution by emptyhb on 2008-05-01 00:12:23 as ** along with 4 people and 2 groups kaarsinogen dpollard lusk cisevol EisenLab cis-regulatory-evolution
  • Evolutionary analysis of the well characterized endo16 promoter reveals substantial variation within functional sites.
    Proc Natl Acad Sci U S A, Vol. 102, No. 24. (14 June 2005), pp. 8591-8596.
    by JP Balhoff, GA Wray
    posted to cis_regulatory_evolution by emptyhb on 2008-04-30 21:38:36 as ** along with 2 people and 2 groups adepace cisevol EisenLab cis-regulatory-evolution
  • Shape and function of the Bicoid morphogen gradient in dipteran species with different sized embryos.
    Dev Biol (13 February 2008)
    by Thomas Gregor, Alistair PP Mcgregor, Eric FF Wieschaus
    posted to trans_elements drosophila cis_regulatory_evolution binding_sites_turnover by emptyhb on 2008-04-30 02:30:46 as ** along with 1 person lusk
  • Functional Evolution of a cis-Regulatory Module
    PLoS Biology, Vol. 3, No. 4. (1 April 2005), e93.
    by Michael Z Ludwig, Arnar Palsson, Elena Alekseeva, Casey M Bergman, Janaki Nathan, Martin Kreitman
    posted to function_study even-skipped_enhancer drosophila cis_regulatory_evolution by emptyhb on 2008-04-28 03:07:14 as ** along with 4 people and 3 groups brant mimulus_99 blobbybirdman cisevol UH - Computational Biology cis-regulatory-evolution Myxo group
  • Functional analysis of eve stripe 2 enhancer evolution in Drosophila: rules governing conservation and change.
    Development, Vol. 125, No. 5. (March 1998), pp. 949-958.
    by MZ Ludwig, NH Patel, M Kreitman
    posted to cis_regulatory_evolution drosophila even-skipped_enhancer function_study by emptyhb on 2008-04-22 15:58:26 as ** along with 3 people and 2 groups brant adepace cisevol EisenLab cis-regulatory-evolution
  • notes Evolutionary analysis of the cis-regulatory region of the spicule matrix gene SM50 in strongylocentrotid sea urchins.
    Developmental biology, Vol. 315, No. 2. (15 March 2008), pp. 567-578.
    by J Walters, E Binkley, R Haygood, LA Romano
    posted to cis_regulatory_evolution detecting_selection by emptyhb on 2008-04-18 02:36:40 as ** along with 1 person pradiptaray
  • A position-dependent organisation of retinoid response elements is conserved in the vertebrate Hox clusters.
    Trends in genetics : TIG, Vol. 19, No. 9. (September 2003), pp. 476-479.
    by G Mainguy, PM In der Rieden, E Berezikov, JM Woltering, RH Plasterk, AJ Durston
    posted to cis_regulatory_evolution by emptyhb on 2008-04-14 05:43:34 as **
  • Divergence of Hoxc8 early enhancer parallels diverged axial morphologies between mammals and fishes.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 26. (23 December 2003), pp. 15666-15669.
    by S Anand, WC Wang, DR Powell, SA Bolanowski, J Zhang, C Ledje, AB Pawashe, CT Amemiya, CS Shashikant
    posted to cis_regulatory_evolution function_study by emptyhb on 2008-04-14 05:35:04 as **
  • 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
  • The effects of selection against spurious transcription factor binding sites.
    Mol Biol Evol, Vol. 20, No. 6. (June 2003), pp. 901-906.
    by MW Hahn, JE Stajich, GA Wray
    posted to cis_regulatory_evolution by emptyhb on 2008-04-12 21:19:28 as ** along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Rewiring of the Yeast Transcriptional Network Through the Evolution of Motif Usage
    Science, Vol. 309, No. 5736. (05 August 2005), pp. 938-940.
    by Jan Ihmels, Sven Bergmann, Maryam Gerami-Nejad, Itai Yanai, Mark Mcclellan, Judith Berman, Naama Barkai
    posted to cis_regulatory_evolution species_divergence transcriptional_regulation by emptyhb on 2008-04-05 19:55:05 as **** along with 7 people and 3 groups aalibes monod arve marcius adepace entropy janek04 EisenLab BioinfoCIPF SGU-CIPF
  • Molecular mechanisms of selector gene function and evolution
    Current Opinion in Genetics & Development, Vol. 12, No. 5. (1 October 2002), pp. 592-600.
    by Richard S Mann, Sean B Carroll
    posted to cis_regulatory_evolution drosophila review by emptyhb on 2008-04-01 06:35:56 as **
  • Evidence for stabilizing selection in a eukaryotic enhancer element
    Nature, Vol. 403, No. 6769. (3 February 2000), pp. 564-567.
    by Michael Z Ludwig, Casey Bergman, Nipam H Patel, Martin Kreitman
    posted to cis_regulatory_evolution drosophila even-skipped_enhancer function_study natural_selection by emptyhb on 2008-03-30 17:08:23 as ** along with 3 people and 1 group brant ranb cisevol cis-regulatory-evolution
  • Evidence for widespread degradation of gene control regions in hominid genomes.
    PLoS Biol, Vol. 3, No. 2. (February 2005)
    by PD Keightley, MJ Lercher, A Eyre-Walker
    posted to cis_regulatory_evolution by emptyhb on 2008-03-30 15:07:37 as ** along with 3 people and 1 group Garamonfok cisevol gjuggler cis-regulatory-evolution
  • Evolutionary dynamics of the enhancer region of even-skipped in Drosophila.
    Mol Biol Evol, Vol. 12, No. 6. (November 1995), pp. 1002-1011.
    by MZ Ludwig, M Kreitman
    posted to cis_regulatory_evolution detecting_selection drosophila even-skipped_enhancer molecular_evolution by emptyhb on 2008-03-25 23:40:33 as ** along with 1 person and 1 group cisevol cis-regulatory-evolution
  • Tracing the evolutionary history of Drosophila regulatory regions with models that identify transcription factor binding sites.
    Mol Biol Evol, Vol. 20, No. 5. (May 2003), pp. 703-714.
    by ET Dermitzakis, CM Bergman, AG Clark
    posted to cis_regulatory_evolution drosophila motif_searching by emptyhb on 2008-03-25 23:01:47 as ** along with 2 people and 1 group brant cisevol cis-regulatory-evolution
  • 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 cis_regulatory_evolution review by emptyhb on 2008-03-25 18:03:23 as ** along with 3 people and 2 groups dpollard blobbybirdman cisevol EisenLab cis-regulatory-evolution
  • Divergence of Transcription Factor Binding Sites Across Related Yeast Species
    Science, Vol. 317, No. 5839. (10 August 2007), pp. 815-819.
    by Anthony R Borneman, Tara A Gianoulis, Zhengdong D Zhang, Haiyuan Yu, Joel Rozowsky, Michael R Seringhaus, Lu Y Wang, Mark Gerstein, Michael Snyder
    posted to cis_regulatory_evolution experimental_method in-vivo_binding_sites species_divergence by emptyhb on 2008-03-21 02:02:57 as ** along with 16 people and 2 groups anka nklee aalibes chad_davis dpollard djkt mikaelhuss lusk cjeans sujaikumar zwang GustavoLacerda Jporci maximilianh cisevol njcitulike EisenLab cis-regulatory-evolution
  • Two or Four Bristles: Functional Evolution of an Enhancer of scute in Drosophilidae
    PLoS Biology, Vol. 4, No. 12. (1 November 2006), e386.
    by Sylvain Marcellini, Pat Simpson
    posted to cis_regulatory_evolution drosophila experimental_method phenotype by emptyhb on 2008-03-21 01:52:48 as ** along with 3 people and 1 group dpollard adepace emmahe EisenLab
  • Subfunctionalization of Duplicated Zebrafish pax6 Genes by cis-Regulatory Divergence
    PLoS Genetics, Vol. 4, No. 2. (1 February 2008), e29.
    by Dirk A Kleinjan, Ruth M Bancewicz, Philippe Gautier, Ralf Dahm, Helia B Schonthaler, Giuseppe Damante, Anne Seawright, Ann M Hever, Patricia L Yeyati, Veronica van Heyningen, Pedro Coutinho
    posted to cis_regulatory_evolution phenotype by emptyhb on 2008-03-07 03:43:29 as ** along with 4 people Stew maximilianh brant gjuggler
  • An evolutionary constraint: Strongly disfavored class of change in DNA sequence during divergence of cis-regulatory modules
    Proceedings of the National Academy of Sciences, Vol. 102, No. 33. (16 August 2005), pp. 11769-11774.
    by Andrew R Cameron, Suk H Chow, Kevin Berney, Tsz-Yeung Chiu, Qiu-Autumn Yuan, Alexander Kramer, Argelia Helguero, Andrew Ransick, Mirong Yun, Eric H Davidson
    posted to cis_regulatory_evolution by emptyhb on 2008-03-02 05:09:08 as ** along with 2 people and 1 group blobbybirdman cisevol 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 cis_regulatory_elements cis_regulatory_evolution drosophila phenotype species_divergence by emptyhb on 2008-03-02 02:50:29 as ** along with 5 people and 2 groups pradiptaray dpollard emilyhare adepace cisevol EisenLab cis-regulatory-evolution
  • Close sequence comparisons are sufficient to identify human cis-regulatory elements.
    Genome Res (12 June 2006)
    by Shyam Prabhakar, Francis Poulin, Malak Shoukry, Veena Afzal, Edward M M Rubin, Olivier Couronne, Len A A Pennacchio
    posted to cis_regulatory_elements cis_regulatory_evolution motif_searching by emptyhb on 2008-02-27 06:32:09 as *** along with 8 people and 2 groups kcrawlik bpcusack mariakmejia indigoviolet dpollard samal nickluscombe olympos EisenLab EBI-regulation
  • Evolution of genes and genomes on the Drosophila phylogeny
    Nature, Vol. 450, No. 7167. (November 2007), pp. 203-218.
    posted to cis_regulatory_evolution drosophila molecular_evolution by emptyhb on 2008-02-24 23:13:30 as ** along with 19 people and 6 groups hdopazo cisevol balicea isimpson CharlesM PetrovLab operon tmmurali indigoviolet djkt timflutre stajich zwang Garamonfok lp2 hpaces caseybrown urgi noor Drosophila-Genetics-Genomics-2008 BergmanLab Bioinformatics EisenLab csb_journal_club_public Berkeley Mycology
  • 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
  • Morphological evolution through multiple cis-regulatory mutations at a single gene
    Nature (15 July 2007)
    by Alistair P Mcgregor, Virginie Orgogozo, Isabelle Delon, Jennifer Zanet, Dayalan G Srinivasan, François Payre, David L Stern
    posted to cis_regulatory_evolution drosophila expression phenotype species_divergence by emptyhb on 2008-02-21 18:12:50 as ** along with 6 people and 2 groups dpollard djkt zwang Stew xingxu cisevol EisenLab cis-regulatory-evolution
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