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Group: cis-regulatory-evolution - library [266 articles]

Articles récents ajouter au groupe cis-regulatory-evolution
  • 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 flies cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-06-30 21:50:06 as ** along with 5 people and 1 group emptyhb pradiptaray caseybrown stajich djkt Berkeley Mycology
  • Differential Allelic Expression in the Human Genome: A Robust Approach To Identify Genetic and Epigenetic Cis-Acting Mechanisms Regulating Gene Expression
    PLoS Genet, Vol. 4, No. 2. (29 February 2008), e1000006.
    by David Serre, Scott Gurd, Bing Ge, Robert Sladek, Donna Sinnett, Eef Harmsen, Marina Bibikova, Eugene Chudin, David L Barker, Todd Dickinson, Jian-Bing Fan, Thomas J Hudson
    posted to rockman_journal_club method expression allele-specific by dpollard to the group cis-regulatory-evolution on 2008-06-27 20:36:21 as ***** along with 1 person and 1 group vplagnol RockmanLab
  • The words of the regulatory code are arranged in a variable manner in highly conserved enhancers.
    Developmental biology (4 April 2008)
    by Sepand Rastegar, Isabell Hess, Thomas Dickmeis, Jean Christophe C Nicod, Raymond Ertzer, Yavor Hadzhiev, Wolf-Gerolf G Thies, Gerd Scherer, Uwe Strähle
    posted to vertebrate cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-06-19 22:33:02 as ** along with 2 people brant maximilianh
  • Evolutionary changes in gene regulation from a comparative analysis of multiple Drosophila species.
    Genome informatics. International Conference on Genome Informatics, Vol. 18 (2007), pp. 12-21.
    by L Hu, D Segrè, TF Smith
    posted to rearrangement flies cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-06-12 21:57:48 as ** along with 1 person pradiptaray
  • CSMET: Comparative Genomic Motif Detection via Multi-Resolution Phylogenetic Shadowing
    PLoS Comput Biol, Vol. 4, No. 6. (6 June 2008), e1000090.
    by Pradipta Ray, Suyash Shringarpure, Mladen Kolar, Eric P Xing
    posted to model flies cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-06-07 21:39:11 as ** along with 3 people Ema Stew djkt
  • Evolutionary rates and patterns for human transcription factor binding sites derived from repetitive DNA
    BMC Genomics, Vol. 9 (17 May 2008), 226.
    by Nalini Polavarapu, Leonardo Marino-Ramirez, David Landsman, John F Mcdonald, King I Jordan
    posted to transposon mammals cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-29 22:08:58 as ** along with 1 person and 1 group pradiptaray BergmanLab
  • Regulatory divergence modifies limb length between mammals
    Genes Dev., Vol. 22, No. 2. (15 January 2008), pp. 141-151.
    by Chris J Cretekos, Ying Wang, Eric D Green, Nisc, James F Martin, John J Rasweiler, Richard R Behringer
    posted to mammals cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-29 10:25:38 as ** along with 1 person dchughes
  • Co-evolution of transcription factors and their targets depends on mode of regulation
    Genome Biology, Vol. 7 (19 July 2006), R62.
    by Ruth Hershberg, Hanah Margalit
    posted to transcription_factor cis-regulatory bacteria by cisevol to the group cis-regulatory-evolution on 2008-05-26 11:18:22 as ** along with 4 people and 1 group PetrovLab indigoviolet dpollard cjeans EisenLab
  • Evolutionary origin of regulatory regions of retrogenes in Drosophila
    BMC Genomics, Vol. 9 (22 May 2008), 241.
    by Yongsheng Bai, Claudio Casola, Esther Betran
    posted to transposon flies duplication cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-25 09:18:47 as **
  • Resurrection of DNA function in vivo from an extinct genome.
    PLoS ONE, Vol. 3, No. 5. (2008)
    by AJ Pask, RR Behringer, MB Renfree
    posted to mammals cis-regulatory ancient_dna by cisevol to the group cis-regulatory-evolution on 2008-05-23 19:08:52 as **
  • Microevolutionary divergence pattern of the segmentation gene hunchback in Drosophila.
    Mol Biol Evol, Vol. 15, No. 11. (November 1998), pp. 1403-1411.
    by D Tautz, L Nigro
    posted to variation flies cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-23 19:03:28 as ** along with 2 people balicea emptyhb
  • A comparison of homologous developmental genes from Drosophila and Tribolium reveals major differences in length and trinucleotide repeat content.
    Journal of molecular evolution, Vol. 49, No. 5. (November 1999), pp. 558-566.
    by KJ Schmid, D Tautz
    posted to transcription_factor insects flies beetles by cisevol to the group cis-regulatory-evolution on 2008-05-22 14:22:20 as **
  • A test for adaptive change in DNA sequences controlling transcription.
    Proceedings. Biological sciences / The Royal Society, Vol. 261, No. 1361. (22 August 1995), pp. 203-207.
    by DL Jenkins, CA Ortori, JF Brookfield
    posted to variation flies cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-22 14:18:25 as **
  • Fast Evolution of Core Promoters in Primate Genomes
    Mol Biol Evol, Vol. 25, No. 6. (1 June 2008), pp. 1239-1244.
    by Han Liang, Yeong-Shin Lin, Wen-Hsiung Li
    posted to mammals cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-18 14:41:37 as ** along with 2 people aprasad Stew
  • Retrotransposition as a Source of New Promoters.
    Mol Biol Evol (25 March 2008)
    by Kohji Okamura, Kenta Nakai
    posted to mammals cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-18 14:40:55 as ** along with 1 person rschulz
  • Transcription of two human genes from a bidirectional endogenous retrovirus promoter.
    Gene (7 November 2005)
    by Catherine A A Dunn, Mark T T Romanish, Leanne E E Gutierrez, Louie N N van de Lagemaat, Dixie L L Mager
    posted to transposon mammals cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-16 15:21:47 as ** along with 1 person and 3 groups dchughes BergmanLab G4ID Genetics-of-Gambling
  • Retrotransposon Tf1 is targeted to Pol II promoters by transcription activators.
    Molecular cell, Vol. 30, No. 1. (11 April 2008), pp. 98-107.
    by YE Leem, TL Ripmaster, FD Kelly, H Ebina, ME Heincelman, K Zhang, SI Grewal, CS Hoffman, HL Levin
    posted to fungi expression cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-05-10 09:06:08 as ** along with 1 group BergmanLab
  • Studying the functional conservation of cis-regulatory modules and their transcriptional output
    BMC Bioinformatics, Vol. 9 (29 April 2008), 220.
    by Denis C Bauer, Timothy L Bailey
    posted to model flies cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-04-30 19:02:30 as ** along with 2 people xili03 maximilianh
  • Possible involvement of SINEs in mammalian-specific brain formation.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 11. (18 March 2008), pp. 4220-4225.
    by T Sasaki, H Nishihara, M Hirakawa, K Fujimura, M Tanaka, N Kokubo, C Kimura-Yoshida, I Matsuo, K Sumiyama, N Saitou, T Shimogori, N Okada
    posted to transposon mammals cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-04-26 19:38:10 as ** along with 1 person and 1 group FMoncini BergmanLab
  • ReXSpecies - a tool for the analysis of the evolution of gene regulation across species
    BMC Evolutionary Biology, Vol. 8 (14 April 2008), 111.
    by Stephan Struckmann, Marcos J Arauzo-Bravo, Hans R Schoeler, Rolland A Reinbold, Georg Fuellen
    posted to cis-regulatory model by cisevol to the group cis-regulatory-evolution on 2008-04-20 13:27:46 as ** along with 1 person maximilianh
  • Local conservation scores without a priori assumptions on neutral substitution rates
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Janis Dingel, Pavol Hanus, Niccolo Leonardi, Joachim Hagenauer, Juergen Zech, Jakob Mueller
    posted to model noncoding by cisevol to the group cis-regulatory-evolution on 2008-04-13 16:34:32 as ** along with 3 people and 1 group aprasad maximilianh RamuAnandakrishnan BergmanLab
  • [Reconstruction of ancestral regulatory signals along a transcription factor tree]
    Molekuliarnaia biologiia, Vol. 41, No. 5. (t 2007), pp. 918-925.
    by KIu Gorbunov, VA Liubetskiĭĭ
    posted to bacteria cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-04-06 08:00:36 as ** along with 1 person pradiptaray
  • Weak correlation between sequence conservation in promoter regions and in protein-coding regions of human-mouse orthologous gene pairs
    BMC Genomics, Vol. 9 (02 April 2008), 152.
    by Hirokazu Chiba, Riu Yamashita, Kengo Kinoshita, Kenta Nakai
    posted to cis-regulatory mammals by cisevol to the group cis-regulatory-evolution on 2008-04-04 20:12:38 as **
  • Impact of Transcription Units rearrangement on the evolution of the regulatory network of gamma-proteobacteria
    BMC Genomics, Vol. 9 (17 March 2008), 128.
    by Abel, Evelyn G Gonzalez, Vladimir E Angarica, Ana, Julio Collado-Vides
    posted to bacteria cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-03-20 18:15:11 as **
  • The Evolution of Gene Regulation Underlies a Morphological Difference between Two Drosophila Sister Species.
    Cell, Vol. 132, No. 5. (7 March 2008), pp. 783-793.
    by S Jeong, M Rebeiz, P Andolfatto, T Werner, J True, SB Carroll
    posted to cis-regulatory flies by cisevol to the group cis-regulatory-evolution on 2008-03-11 21:52:21 as ** along with 1 person Stew
  • Links between core promoter and basic gene features influence gene expression
    BMC Genomics, Vol. 9 (25 February 2008), 92.
    by Sandra Moshonov, Rofa Elfakess, Michal Golan-Mashiach, Hadar Sinvani, Rivka Dikstein
    posted to cis-regulatory by cisevol to the group cis-regulatory-evolution on 2008-02-29 09:36:38 as ** along with 1 group BergmanLab
  • Genetic Properties Influencing the Evolvability of Gene Expression.
    Science (24 May 2007)
    by Christian R R Landry, Bernardo Lemos, Scott A A Rifkin, W J J Dickinson, Daniel L L Hartl
    posted to cis-regulatory fungi microarray by cisevol to the group cis-regulatory-evolution on 2008-02-18 19:22:20 as ** along with 9 people and 2 groups jjray brant balicea sebastien_vigneau grahamc emarker heliopais caseybrown emptyhb EisenLab ParkinsonLab_at_MaRS
  • Origin and evolution of human microRNAs from transposable elements.
    Genetics (15 April 2007)
    by Jittima Piriyapongsa, Leonardo Mariño-Ramírez, I King K Jordan
    posted to mammals mirna transposon by cisevol to the group cis-regulatory-evolution on 2008-02-05 21:22:12 as ** along with 6 people and 4 groups gpappas tardigrade andersbj dchughes mtagaya emptyhb microRNA G4ID Genetics-of-Gambling BergmanLab
  • Genome-wide B1 retrotransposon binds the transcription factors dioxin receptor and Slug and regulates gene expression in vivo.
    Proc Natl Acad Sci U S A (25 January 2008)
    by Angel Carlos C Roman, Dixan A A Benitez, Jose M M Carvajal-Gonzalez, Pedro M M Fernandez-Salguero
    posted to cis-regulatory mammals transposon by cisevol to the group cis-regulatory-evolution on 2008-02-05 21:18:50 as ** along with 1 person and 1 group maximilianh BergmanLab
  • Do Alu repeats shape the primate transcriptome?
    Genome Biology, Vol. 9, No. 2. (2008)
    by Araxi Urrutia, Leandro B Ocana, Laurence Hurst
    posted to cis-regulatory mammals microarray transposon by cisevol to the group cis-regulatory-evolution on 2008-02-04 22:40:36 as ** along with 3 people and 1 group dchughes djkt biomcgary BergmanLab
  • 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 to the group cis-regulatory-evolution on 2008-02-01 06:19:08 as read along with 1 person and 1 group maximilianh EisenLab
  • Functional evolution of the p53 regulatory network through its target response elements
    Proceedings of the National Academy of Sciences (10 January 2008), 0704694105.
    by Anil G Jegga, Alberto Inga, Daniel Menendez, Bruce J Aronow, Michael A Resnick
    posted to cis-regulatory mammals by cisevol to the group cis-regulatory-evolution on 2008-01-30 20:38:40 as ** along with 5 people brant cjeans zwang idonaldson renatomilani
  • Life-history traits drive the evolutionary rates of mammalian coding and noncoding genomic elements
    Proceedings of the National Academy of Sciences (11 December 2007), 0705658104.
    by Sergey I Nikolaev, Juan I Montoya-Burgos, Konstantin Popadin, Leila Parand, Elliott H Margulies, National, Stylianos E Antonarakis
    posted to mammals noncoding by cisevol to the group cis-regulatory-evolution on 2008-01-30 20:36:12 as ** along with 4 people aprasad djkt cjeans zwang
  • On the relation between promoter divergence and gene expression evolution
    Mol Syst Biol, Vol. 4 (15 January 2008)
    by Itay Tirosh, Adina Weinberger, Dana Bezalel, Mark Kaganovich, Naama Barkai
    posted to cis-regulatory fungi microarray by cisevol to the group cis-regulatory-evolution on 2008-01-30 20:35:13 as ** along with 8 people and 1 group Jporci balicea kengg zwang biomcgary caseybrown renatomilani mclarenv BergmanLab
  • Computational discovery of cis-regulatory modules in Drosophila, without prior knowledge of motifs
    Genome Biology, Vol. 9, No. 1. (2008)
    by Andra Ivan, Marc Halfon, Saurabh Sinha
    posted to cis-regulatory flies model by cisevol to the group cis-regulatory-evolution on 2008-01-30 14:21:24 as ** along with 2 people maximilianh csdhwang
  • Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution
    BMC Bioinformatics, Vol. 9 (23 January 2008), 37.
    by Rekin's Janky, Jacques van Helden
    posted to bacteria cis-regulatory model by cisevol to the group cis-regulatory-evolution on 2008-01-28 09:40:50 as **
  • A genome-wide screen for noncoding elements important in primate evolution
    BMC Evolutionary Biology, Vol. 8 (23 January 2008), 17.
    by Eliot C Bush, Bruce T Lahn
    posted to mammals noncoding by cisevol to the group cis-regulatory-evolution on 2008-01-28 09:38:13 as **
  • Understanding of bat wing evolution takes flight
    Genes Dev., Vol. 22, No. 2. (15 January 2008), pp. 121-124.
    by Kimberly L Cooper, Clifford J Tabin
    posted to development evolution genetics by blobbybirdman to the group cis-regulatory-evolution on 2008-01-22 11:43:36 as *****
  • Human cis natural antisense transcripts initiated by transposable elements.
    Trends Genet (11 January 2008)
    by Andrew B B Conley, Wolfgang J J Miller, I King K Jordan
    posted to cis-regulatory mammals transposon by cisevol to the group cis-regulatory-evolution on 2008-01-20 22:36:40 as ** along with 6 people and 1 group gpappas balicea dchughes sebastien_vigneau timflutre yoanjacquemin BergmanLab
  • Transcriptional Regulation of Pituitary POMC Is Conserved at the Vertebrate Extremes Despite Great Promoter Sequence Divergence
    Mol Endocrinol, Vol. 21, No. 11. (1 November 2007), pp. 2738-2749.
    by Viviana F Bumaschny, Flavio S de Souza, Lopez, Andrea M Santangelo, Manfred Baetscher, Diego H Levi, Malcolm J Low, Marcelo Rubinstein
    posted to cis-regulatory vertebrate by cisevol to the group cis-regulatory-evolution on 2008-01-14 15:41:28 as ** along with 1 person maximilianh
  • 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 cis-regulatory fungi by cisevol to the group cis-regulatory-evolution on 2008-01-12 15:13:22 as ** along with 6 people and 3 groups emptyhb marcius brant adepace aswin srfairclough EisenLab BioinfoCIPF SGU-CIPF
  • Evolution of a combinatorial transcriptional circuit: a case study in yeasts.
    Cell, Vol. 115, No. 4. (14 November 2003), pp. 389-399.
    by AE Tsong, MG Miller, RM Raisner, AD Johnson
    posted to cis-regulatory fungi by cisevol to the group cis-regulatory-evolution on 2008-01-12 15:12:46 as **
  • Multiple Organism Algorithm for Finding Ultraconserved Elements
    BMC Bioinformatics, Vol. 9 (11 January 2008), 15.
    by Scott Christley, Neil F Lobo, Greg Madey
    posted to mammals model noncoding by cisevol to the group cis-regulatory-evolution on 2008-01-12 15:11:22 as ** along with 2 people fpattyn yoanjacquemin
  • Coordinated evolution of co-expressed gene clusters in the Drosophila transcriptome
    BMC Evolutionary Biology, Vol. 8 (07 January 2008), 2.
    by Jason G Mezey, Sergey V Nuzhdin, Fangfei Ye, Corbin D Jones
    posted to cis-regulatory flies microarray by cisevol to the group cis-regulatory-evolution on 2008-01-09 21:40:08 as **
  • Maintenance of transposon-free regions throughout vertebrate evolution
    BMC Genomics, Vol. 8 (20 December 2007), 470.
    by Cas Simons, Igor V Makunin, Michael Pheasant, John S Mattick
    posted to mammals noncoding transposon by cisevol to the group cis-regulatory-evolution on 2007-12-22 13:26:58 as ** along with 2 people and 1 group blobbybirdman idonaldson BergmanLab
  • 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 cis-regulatory model by cisevol to the group cis-regulatory-evolution on 2007-12-15 13:35:20 as ** along with 1 person emptyhb
  • Compositional evolution of noncoding DNA in the human and chimpanzee genomes.
    Mol Biol Evol, Vol. 20, No. 2. (February 2003), pp. 278-286.
    by MT Webster, NG Smith, H Ellegren
    posted to mammals noncoding variation by cisevol to the group cis-regulatory-evolution on 2007-12-10 22:13:50 as **
  • Highly conserved non-coding sequences are associated with vertebrate development.
    PLoS Biol, Vol. 3, No. 1. (January 2005)
    by A Woolfe, M Goodson, DK Goode, P Snell, GK McEwen, T Vavouri, SF Smith, P North, H Callaway, K Kelly, K Walter, I Abnizova, W Gilks, YJ Edwards, JE Cooke, G Elgar
    posted to fish noncoding by cisevol to the group cis-regulatory-evolution on 2007-12-10 22:07:55 as ** along with 7 people and 1 group awoolfe djkt sujaikumar Stew maximilianh rrhudson gelgar EisenLab
  • Fine-Tuning Enhancer Models to Predict Transcriptional Targets across Multiple Genomes.
    PLoS ONE, Vol. 2, No. 11. (2007)
    by S Aerts, J van Helden, O Sand, BA Hassan
    posted to cis-regulatory flies model by maximilianh to the group cis-regulatory-evolution on 2007-12-08 15:34:13 as ** along with 4 people isimpson brant idonaldson barwil
  • Prediction of synergistic transcription factors by function conservation
    Genome Biology, Vol. 8, No. 12. (2007)
    by Zihua Hu, Boyu Hu, James Collins
    posted to cis-regulatory mammals model noalignment by maximilianh to the group cis-regulatory-evolution on 2007-12-08 15:12:16 as ** along with 3 people cjeans nklee ale
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