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Group: cis-regulatory-evolution - library [251 articles]

Neue Artikel von Mitliedern der Gruppe cis-regulatory-evolution Gruppe
  • 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 drosophila 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 **
  • 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 2 people and 1 group 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 3 people 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 3 people 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
  • Dynamic control of positional information in the early Drosophila embryo.
    Nature, Vol. 430, No. 6997. (15 July 2004), pp. 368-371.
    by J Jaeger, S Surkova, M Blagov, H Janssens, D Kosman, KN Kozlov, Manu, E Myasnikova, CE Vanario-Alonso, M Samsonova, DH Sharp, J Reinitz
    posted to drosophila gene-regulatory-networks transcription by blobbybirdman to the group cis-regulatory-evolution on 2007-12-07 17:51:13 as **** along with 1 person and 2 groups wrowell Cline_lab UH - Computational Biology
  • 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 mammals variation by dpollard to the group cis-regulatory-evolution on 2007-12-05 23:03:10 as *** along with 1 group EisenLab
  • 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 cis-regulatory mammals variation by dpollard to the group cis-regulatory-evolution on 2007-12-05 22:53:19 as *** along with 1 group EisenLab
  • 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 cis-regulatory mammals variation by dpollard to the group cis-regulatory-evolution on 2007-12-05 22:51:02 as *** along with 1 group EisenLab
  • 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 cis-regulatory flies by dpollard to the group cis-regulatory-evolution on 2007-12-05 22:44:47 as read along with 1 person and 1 group emilyhare EisenLab
  • A transposable element inserted just 5' to a Drosophila glue protein gene alters gene expression and chromatin structure.
    Cell, Vol. 34, No. 1. (August 1983), pp. 75-84.
    by W McGinnis, AW Shermoen, SK Beckendorf
    posted to cis-regulatory flies transposon by cisevol to the group cis-regulatory-evolution on 2007-12-01 16:48:38 as ** along with 1 group BergmanLab
  • Multiple independent evolutionary solutions to core histone gene regulation
    Genome Biology, Vol. 7 (21 December 2006), R122.
    by Leonardo Marino-Ramirez, King I Jordan, David Landsman
    posted to cis-regulatory duplication by cisevol to the group cis-regulatory-evolution on 2007-11-26 08:32:18 as **
  • Conserved eukaryotic transposable elements and the evolution of gene regulation.
    Cell Mol Life Sci (20 November 2007)
    by J Jurka
    posted to cis-regulatory mammals noncoding transposon by cisevol to the group cis-regulatory-evolution on 2007-11-22 15:36:44 as ** along with 5 people and 1 group gpappas dchughes Stew maximilianh idonaldson BergmanLab
  • 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 flies by dpollard to the group cis-regulatory-evolution on 2007-11-21 01:23:45 as read along with 1 group EisenLab
  • 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 flies model by dpollard to the group cis-regulatory-evolution on 2007-11-17 00:01:35 as *** along with 7 people and 1 group lp2 nklee maximilianh roys caseybrown emptyhb barwil EisenLab
  • 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 cis-regulatory model by dpollard to the group cis-regulatory-evolution on 2007-11-16 23:53:34 as **** along with 7 people and 1 group ana cjeans zwang maximilianh hpaces Ema uwe EisenLab
  • Constraint and turnover in sex-biased gene expression in the genus Drosophila
    Nature, Vol. 450, No. 7167., pp. 233-237.
    by Yu Zhang, David Sturgill, Michael Parisi, Sudhir Kumar, Brian Oliver
    posted to cis-regulatory flies microarray by dpollard to the group cis-regulatory-evolution on 2007-11-16 23:49:54 as read along with 1 person and 1 group indigoviolet EisenLab
  • Evolution of the dorsal-ventral patterning network in the mosquito, Anopheles gambiae.
    Development, Vol. 134, No. 13. (July 2007), pp. 2415-2424.
    by Y Goltsev, N Fuse, M Frasch, RP Zinzen, G Lanzaro, M Levine
    posted to cis-regulatory flies by dpollard to the group cis-regulatory-evolution on 2007-11-05 22:47:23 as ** along with 1 group EisenLab
  • Evolution of the ventral midline in insect embryos.
    Dev Cell, Vol. 11, No. 6. (December 2006), pp. 895-902.
    by RP Zinzen, J Cande, M Ronshaugen, D Papatsenko, M Levine
    posted to cis-regulatory flies by dpollard to the group cis-regulatory-evolution on 2007-11-05 22:36:33 as ** along with 1 person and 1 group KingLab EisenLab
  • Patterns of selective constraints in noncoding DNA of rice
    BMC Evolutionary Biology, Vol. 7 (01 November 2007), 208.
    by Xingyi Guo, Yu Wang, Peter D Keightley, Longjiang Fan
    posted to noncoding plants by cisevol to the group cis-regulatory-evolution on 2007-11-01 23:07:57 as **
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