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emptyhbs library [138 articles]

Neue Artikel in emptyhbs library ordered by importance.
  • 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
  • Evolution and Selection in Yeast Promoters: Analyzing the Combined Effect of Diverse Transcription Factor Binding Sites
    PLoS Computational Biology, Vol. 4, No. 1. (1 January 2008), e7.
    by Daniela Raijman, Ron Shamir, Amos Tanay
    posted to no-tag by emptyhb on 2008-03-21 02:15:40 as ***** along with 7 people and 1 group aalibes chad_davis sebastien_vigneau lusk Garamonfok nklee maximilianh BioinfoCIPF
  • notes Evolution of Transcription Factor Binding Sites in Mammalian Gene Regulatory Regions: Conservation and Turnover
    Mol Biol Evol, Vol. 19, No. 7. (1 July 2002), pp. 1114-1121.
    by Emmanouil T Dermitzakis, Andrew G Clark
    posted to binding_sites_turnover cis_regulatory_elements by emptyhb on 2007-12-09 16:53:51 as ***** along with 3 people and 2 groups adepace cisevol xili03 EisenLab 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
  • Gene Regulation by Transcription Factors and MicroRNAs
    Science, Vol. 319, No. 5871. (28 March 2008), pp. 1785-1786.
    by Oliver Hobert
    posted to mirna review transcriptional_regulation by emptyhb on 2008-04-01 07:19:00 as **** along with 6 people and 1 group bootsy ealloza zwang biomcgary heliopais maralena microRNA
  • Transcriptional Control in the Segmentation Gene Network of Drosophila
    PLoS Biology, Vol. 2, No. 9. (1 September 2004), e271.
    by Mark D Schroeder, Michael Pearce, John Fak, Hongqing Fan, Ulrich Unnerstall, Eldon Emberly, Nikolaus Rajewsky, Eric D Siggia, Ulrike Gaul
    posted to cis_regulatory_elements drosophila motif_searching pattern_formation transcriptional_regulation by emptyhb on 2008-01-19 22:49:02 as **** along with 5 people and 3 groups indigoviolet dpollard adepace wrowell dlmace EisenLab Cline_lab UH - Computational Biology
  • Evaluating the role of natural selection in the evolution of gene regulation
    Heredity, Vol. aop, No. current.
    by JC Fay, PJ Wittkopp
    posted to cis_regulatory_elements detecting_selection review transcriptional_regulation by emptyhb on 2007-12-31 18:07:55 as **** along with 3 people and 2 groups dpollard djkt cisevol EisenLab cis-regulatory-evolution
  • Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays
    Nature Genetics, Vol. 36, No. 12. (14 November 2004), 1331.
    by Sonali Mukherjee, Michael F Berger, Ghil Jona, Xun S Wang, Dale Muzzey, Michael Snyder, Richard A Young, Martha L Bulyk
    posted to biophysics dna-protein_interaction in-vivo_binding_sites by emptyhb on 2008-04-05 23:00:57 as *** along with 4 people johncumbers olympos nklee yevishere
  • 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 6 people and 2 groups mariakmejia indigoviolet dpollard samal nickluscombe olympos EisenLab EBI-regulation
  • 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
  • Comprehensive identification of Drosophila dorsal-ventral patterning genes using a whole-genome tiling array
    Proceedings of the National Academy of Sciences, Vol. 103, No. 34. (22 August 2006), pp. 12763-12768.
    by Frederic Biemar, David A Nix, Jessica Piel, Brant Peterson, Matthew Ronshaugen, Victor Sementchenko, Ian Bell, Robert J Manak, Michael S Levine
    posted to cis_regulatory_elements drosophila mirna pattern_formation by emptyhb on 2008-01-11 16:48:18 as *** along with 1 person and 1 group Stew EisenLab
  • 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
  • Intragenic Recombination and Diversifying Selection Contribute to the Evolution of Downy Mildew Resistance at the RPP8 Locus of Arabidopsis
    Plant Cell, Vol. 10, No. 11. (1 November 1998), pp. 1861-1874.
    by John M Mcdowell, Murali Dhandaydham, Terri A Long, Mark G Aarts, Stephen Goff, Eric B Holub, Jeffery L Dangl
    posted to immune plant by emptyhb on 2007-11-28 14:15:42 as ***
  • Regulation of even-skipped stripe 2 in the Drosophila embryo.
    The EMBO journal, Vol. 11, No. 11. (November 1992), pp. 4047-4057.
    by S Small, A Blair, M Levine
    posted to transcriptional_regulation even-skipped_enhancer drosophila by emptyhb on 2008-05-16 01:07:25 as ** along with 1 person brant
  • Levers and fulcrums: progress in cis-regulatory motif models
    Nature Methods, Vol. 5, No. 4., pp. 297-298.
    by Ewan Birney
    posted to modeling_gene_network cis_regulatory_elements by emptyhb on 2008-05-16 00:34:33 as ** along with 1 person and 2 groups stajich EisenLab Berkeley Mycology
  • 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
  • Cannot Earthquakes Be Predicted?
    Science, Vol. 278, No. 5337. (17 October 1997), pp. 487-490.
    by Max Wyss;, Richard L Aceves, Stephen K Park;, Robert J Geller, David D Jackson, Yan Y Kagan, Francesco Mulargia;
    posted to earth_quake by emptyhb on 2008-05-14 06:19:00 as **
  • Earthquakes Cannot Be Predicted
    Science, Vol. 275, No. 5306. (14 March 1997), pp. 1616-0.
    by Robert J Geller, David D Jackson, Yan Y Kagan, Francesco Mulargia
    posted to earth_quake by emptyhb on 2008-05-14 06:17:42 as **
  • From the Cover: Emergence of tempered preferential attachment from optimization
    Proceedings of the National Academy of Sciences, Vol. 104, No. 15. (10 April 2007), pp. 6112-6117.
    by Raissa M D'Souza, Christian Borgs, Jennifer T Chayes, Noam Berger, Robert D Kleinberg
    posted to earth_quake by emptyhb on 2008-05-14 06:17:01 as **
  • Under cover: causes, effects and implications of Hsp90-mediated genetic capacitance.
    Bioessays, Vol. 26, No. 4. (April 2004), pp. 348-362.
    by TA Sangster, S Lindquist, C Queitsch
    posted to genetic_buffering by emptyhb on 2008-05-11 16:16:01 as ** along with 2 people rklancer pat
  • Hsp90 as a capacitor for morphological evolution
    Nature, Vol. 396, No. 6709. (26 November 1998), pp. 336-342.
    by Suzanne L Rutherford, Susan Lindquist
    posted to genetic_buffering by emptyhb on 2008-05-11 15:58:43 as ** along with 2 people Ema natstreet
  • Evidence for an epigenetic mechanism by which Hsp90 acts as a capacitor for morphological evolution
    Nat Genet, Vol. 33, No. 1. (January 2003), pp. 70-74.
    by Vincent Sollars, Xiangyi Lu, Li Xiao, Xiaoyan Wang, Mark D Garfinkel, Douglas M Ruden
    posted to genetic_buffering by emptyhb on 2008-05-11 15:47:47 as ** along with 2 people Ema epigenetics
  • Hsp90 as a capacitor of phenotypic variation.
    Nature, Vol. 417, No. 6889. (6 June 2002), pp. 618-624.
    by C Queitsch, TA Sangster, S Lindquist
    posted to genetic_buffering by emptyhb on 2008-05-11 15:44:55 as **
  • 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
  • Expression evolution in yeast genes of single-input modules is mainly due to changes in trans-acting factors.
    Genome Res (5 July 2007)
    by Daryi Wang, Huang-Mo M Sung, Tzi-Yuan Y Wang, Chih-Jen J Huang, Peggy Yang, Tiffany Chang, Yang-Chao C Wang, Da-Lun L Tseng, Jen-Pey P Wu, Tso-Ching C Lee, Ming-Che C Shih, Wen-Hsiung H Li
    posted to transcriptional_regulation expression by emptyhb on 2008-05-10 21:56:58 as ** along with 4 people and 3 groups dpollard jwestbrook emarker cisevol EisenLab King_Lab 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
  • Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA.
    Genetics, Vol. 139, No. 2. (February 1995), pp. 1067-1076.
    by H Akashi
    posted to drosophila detecting_selection by emptyhb on 2008-05-05 14:50:59 as **
  • Gene Regulation in the Third Dimension
    Science, Vol. 319, No. 5871. (28 March 2008), pp. 1793-1794.
    by Job Dekker
    posted to transcriptional_regulation by emptyhb on 2008-05-04 21:35:40 as ** along with 8 people and 1 group operon AbnerCYH ealloza biomcgary sunhwan dlobo lambda Haze GEB
  • 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 7 people and 5 groups 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
  • Chromatin decouples promoter threshold from dynamic range
    Nature (16 April 2008)
    by Felix H Lam, David J Steger, Erin K O’shea
    posted to transcriptional_regulation experimental_method epigenetics basic_cell_machinary by emptyhb on 2008-05-03 15:36:45 as ** along with 1 person jjray
  • Comparative genome sequencing of Escherichia coli allows observation of bacterial evolution on a laboratory timescale
    Nature Genetics, Vol. 38, No. 12. (05 November 2006), pp. 1406-1412.
    by Christopher D Herring, Anu Raghunathan, Christiane Honisch, Trina Patel, Kenyon M Applebee, Andrew R Joyce, Thomas J Albert, Frederick R Blattner, Dirk van den Boom, Charles R Cantor, Bernhard
    posted to natural_selection by emptyhb on 2008-05-02 21:47:45 as ** along with 3 people alexl dylan77 hevol
  • Molecular drive: a cohesive mode of species evolution
    Nature, Vol. 299, No. 5879. (1982), pp. 111-117.
    by Gabriel Dover
    posted to natural_selection molecular_evolution by emptyhb on 2008-05-02 15:40:55 as **
  • Functional characterization of variations on regulatory motifs.
    PLoS genetics, Vol. 4, No. 3. (March 2008)
    by L Michal, O Mizrahi-Man, Y Pilpel
    posted to transcriptional_regulation modeling_gene_network by emptyhb on 2008-05-02 04:10:47 as **
  • Population Genetics of Polymorphism and Divergence
    Genetics, Vol. 132, No. 4. (1 December 1992), pp. 1161-1176.
    by SA Sawyer, DL Hartl
    posted to population_genetics_modeling by emptyhb on 2008-05-01 00:41:23 as ** along with 2 people bpb djkt
  • 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 P P McGregor, Eric F F Wieschaus
    posted to trans_elements drosophila cis_regulatory_evolution 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
  • Evolutionary plasticity of genetic interaction networks
    Nat Genet, Vol. 40, No. 4. (April 2008), pp. 390-391.
    by Julia Tischler, Ben Lehner, Andrew G Fraser
    posted to news by emptyhb on 2008-04-24 05:53:33 as ** along with 3 people and 1 group caseybrown smgomez ptrobajo GomezLab
  • Delivery codes for fly transgenics
    Nature Genetics, Vol. 40, No. 4., pp. 383-384.
    by Thomas C Tubon, Jerry CP Yin
    posted to experimental_method drosophila by emptyhb on 2008-04-24 05:50:56 as **
  • 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 **
  • The birth and death of microRNA genes in Drosophila.
    Nat Genet (17 February 2008)
    by Jian Lu, Yang Shen, Qingfa Wu, Supriya Kumar, Bin He, Suhua Shi, Richard W W Carthew, San Ming M Wang, Chung-I I Wu
    posted to mirna by emptyhb on 2008-04-17 17:24:45 as ** along with 5 people and 1 group stajich djkt bootsy cellison megraw Berkeley Mycology
  • 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 **
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