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Nøkkelord: comparative_genomics [146 articles]

Nye artikler klassifisert med nøkkelordet comparative_genomics.
  • Evolutionary genomics: Come fly with us
    Nature, Vol. 450, No. 7167. (07 November 2007), pp. 184-185.
    by Ewan Birney
  • Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
    Nature, Vol. 450, No. 7167., pp. 219-232.
    by Alexander Stark, Michael F Lin, Pouya Kheradpour, Jakob S Pedersen, Leopold Parts, Joseph W Carlson, Madeline A Crosby, Matthew D Rasmussen, Sushmita Roy, Ameya N Deoras, Graham J Ruby, Julius Brennecke, Harvard F Curators, Berkeley, Emily Hodges, Angie S Hinrichs, Anat Caspi, Benedict Paten, Seung-Won Park, Mira V Han, Morgan L Maeder, Benjamin J Polansky, Bryanne E Robson, Stein Aerts, Jacques van Helden, Bassem Hassan, Donald G Gilbert, Deborah A Eastman, Michael Rice, Michael Weir, Matthew W Hahn, Yongkyu Park, Colin N Dewey, Lior Pachter, James W Kent, David Haussler, Eric C Lai, David P Bartel, Gregory J Hannon, Thomas C Kaufman, Michael B Eisen, Andrew G Clark, Douglas Smith, Susan E Celniker, William M Gelbart, Manolis Kellis
  • Genome sequence surveys of Brachiola algerae and Edhazardia aedis reveal microsporidia with low gene densities
    BMC Genomics, Vol. 9 (29 April 2008), 200.
    by Bryony AP Williams, Renny CH Lee, James J Becnel, Louis M Weiss, Naomi M Fast, Patrick J Keeling
  • Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes
    Genome Res. (7 November 2007), gr.6593807.
    by Alexander Stark, Pouya Kheradpour, Leopold Parts, Julius Brennecke, Emily Hodges, Gregory J Hannon, Manolis Kellis
  • Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
    Genome Biology, Vol. 9 (11 January 2008), R7.
    by Brian J Haas, Steven L Salzberg, Wei Zhu, Mihaela Pertea, Jonathan E Allen, Joshua Orvis, Owen R White, Robin C Buell, Jennifer R Wortman
  • Distinguishing protein-coding and noncoding genes in the human genome
    Proceedings of the National Academy of Sciences (26 November 2007), 0709013104.
    by Michele Clamp, Ben Fry, Mike Kamal, Xiaohui Xie, James Cuff, Michael F Lin, Manolis Kellis, Kerstin Lindblad-Toh, Eric S Lander
  • Evolution of genes and genomes on the Drosophila phylogeny
    Nature, Vol. 450, No. 7167. (November 2007), pp. 203-218.
  • Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster.
    Science, Vol. 298, No. 5591. (4 October 2002), pp. 149-159.
  • Initial sequencing and comparative analysis of the mouse genome.
    Nature, Vol. 420, No. 6915. (5 December 2002), pp. 520-562.
    by RH Waterston, K Lindblad-Toh, E Birney, J Rogers, JF Abril, P Agarwal, R Agarwala, R Ainscough, M Alexandersson, P An, SE Antonarakis, J Attwood, R Baertsch, J Bailey, K Barlow, S Beck, E Berry, B Birren, T Bloom, P Bork, M Botcherby, N Bray, MR Brent, DG Brown, SD Brown, C Bult, J Burton, J Butler, RD Campbell, P Carninci, S Cawley, F Chiaromonte, AT Chinwalla, DM Church, M Clamp, C Clee, FS Collins, LL Cook, RR Copley, A Coulson, O Couronne, J Cuff, V Curwen, T Cutts, M Daly, R David, J Davies, KD Delehaunty, J Deri, ET Dermitzakis, C Dewey, NJ Dickens, M Diekhans, S Dodge, I Dubchak, DM Dunn, SR Eddy, L Elnitski, RD Emes, P Eswara, E Eyras, A Felsenfeld, GA Fewell, P Flicek, K Foley, WN Frankel, LA Fulton, RS Fulton, TS Furey, D Gage, RA Gibbs, G Glusman, S Gnerre, N Goldman, L Goodstadt, D Grafham, TA Graves, ED Green, S Gregory, R Guigó, M Guyer, RC Hardison, D Haussler, Y Hayashizaki, LW Hillier, A Hinrichs, W Hlavina, T Holzer, F Hsu, A Hua, T Hubbard, A Hunt, I Jackson, DB Jaffe, LS Johnson, M Jones, TA Jones, A Joy, M Kamal, EK Karlsson, D Karolchik, A Kasprzyk, J Kawai, E Keibler, C Kells, WJ Kent, A Kirby, DL Kolbe, I Korf, RS Kucherlapati, EJ Kulbokas, D Kulp, T Landers, JP Leger, S Leonard, I Letunic, R Levine, J Li, M Li, C Lloyd, S Lucas, B Ma, DR Maglott, ER Mardis, L Matthews, E Mauceli, JH Mayer, M McCarthy, WR McCombie, S McLaren, K McLay, JD McPherson, J Meldrim, B Meredith, JP Mesirov, W Miller, TL Miner, E Mongin, KT Montgomery, M Morgan, R Mott, JC Mullikin, DM Muzny, WE Nash, JO Nelson, MN Nhan, R Nicol, Z Ning, C Nusbaum, MJ O'Connor, Y Okazaki, K Oliver, E Overton-Larty, L Pachter, G Parra, KH Pepin, J Peterson, P Pevzner, R Plumb, CS Pohl, A Poliakov, TC Ponce, CP Ponting, S Potter, M Quail, A Reymond, BA Roe, KM Roskin, EM Rubin, AG Rust, R Santos, V Sapojnikov, B Schultz, J Schultz, MS Schwartz, S Schwartz, C Scott, S Seaman, S Searle, T Sharpe, A Sheridan, R Shownkeen, S Sims, JB Singer, G Slater, A Smit, DR Smith, B Spencer, A Stabenau, N Stange-Thomann, C Sugnet, M Suyama, G Tesler, J Thompson, D Torrents, E Trevaskis, J Tromp, C Ucla, A Ureta-Vidal, JP Vinson, AC Von Niederhausern, CM Wade, M Wall, RJ Weber, RB Weiss, MC Wendl, AP West, K Wetterstrand, R Wheeler, S Whelan, J Wierzbowski, D Willey, S Williams, RK Wilson, E Winter, KC Worley, D Wyman, S Yang, SP Yang, EM Zdobnov, MC Zody, ES Lander,
  • Genome sequence of the Brown Norway rat yields insights into mammalian evolution.
    Nature, Vol. 428, No. 6982. (1 April 2004), pp. 493-521.
    by RA Gibbs, GM Weinstock, ML Metzker, DM Muzny, EJ Sodergren, S Scherer, G Scott, D Steffen, KC Worley, PE Burch, G Okwuonu, S Hines, L Lewis, C DeRamo, O Delgado, S Dugan-Rocha, G Miner, M Morgan, A Hawes, R Gill, Celera, RA Holt, MD Adams, PG Amanatides, H Baden-Tillson, M Barnstead, S Chin, CA Evans, S Ferriera, C Fosler, A Glodek, Z Gu, D Jennings, CL Kraft, T Nguyen, CM Pfannkoch, C Sitter, GG Sutton, JC Venter, T Woodage, D Smith, HM Lee, E Gustafson, P Cahill, A Kana, L Doucette-Stamm, K Weinstock, K Fechtel, RB Weiss, DM Dunn, ED Green, RW Blakesley, GG Bouffard, PJ De Jong, K Osoegawa, B Zhu, M Marra, J Schein, I Bosdet, C Fjell, S Jones, M Krzywinski, C Mathewson, A Siddiqui, N Wye, J McPherson, S Zhao, CM Fraser, J Shetty, S Shatsman, K Geer, Y Chen, S Abramzon, WC Nierman, PH Havlak, R Chen, KJ Durbin, A Egan, Y Ren, XZ Song, B Li, Y Liu, X Qin, S Cawley, KC Worley, AJ Cooney, LM D'Souza, K Martin, JQ Wu, ML Gonzalez-Garay, AR Jackson, KJ Kalafus, MP McLeod, A Milosavljevic, D Virk, A Volkov, DA Wheeler, Z Zhang, JA Bailey, EE Eichler, E Tuzun, E Birney, E Mongin, A Ureta-Vidal, C Woodwark, E Zdobnov, P Bork, M Suyama, D Torrents, M Alexandersson, BJ Trask, JM Young, H Huang, H Wang, H Xing, S Daniels, D Gietzen, J Schmidt, K Stevens, U Vitt, J Wingrove, F Camara, M Mar Albà, JF Abril, R Guigo, A Smit, I Dubchak, EM Rubin, O Couronne, A Poliakov, N Hübner, D Ganten, C Goesele, O Hummel, T Kreitler, YA Lee, J Monti, H Schulz, H Zimdahl, H Himmelbauer, H Lehrach, HJ Jacob, S Bromberg, J Gullings-Handley, MI Jensen-Seaman, AE Kwitek, J Lazar, D Pasko, PJ Tonellato, S Twigger, CP Ponting, JM Duarte, S Rice, L Goodstadt, SA Beatson, RD Emes, EE Winter, C Webber, P Brandt, G Nyakatura, M Adetobi, F Chiaromonte, L Elnitski, P Eswara, RC Hardison, M Hou, D Kolbe, K Makova, W Miller, A Nekrutenko, C Riemer, S Schwartz, J Taylor, S Yang, Y Zhang, K Lindpaintner, TD Andrews, M Caccamo, M Clamp, L Clarke, V Curwen, R Durbin, E Eyras, SM Searle, GM Cooper, S Batzoglou, M Brudno, A Sidow, EA Stone, JC Venter, BA Payseur, G Bourque, C López-Otín, XS Puente, K Chakrabarti, S Chatterji, C Dewey, L Pachter, N Bray, VB Yap, A Caspi, G Tesler, PA Pevzner, D Haussler, KM Roskin, R Baertsch, H Clawson, TS Furey, AS Hinrichs, D Karolchik, WJ Kent, KR Rosenbloom, H Trumbower, M Weirauch, DN Cooper, PD Stenson, B Ma, M Brent, M Arumugam, D Shteynberg, RR Copley, MS Taylor, H Riethman, U Mudunuri, J Peterson, M Guyer, A Felsenfeld, S Old, S Mockrin, F Collins,
  • The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
    PLoS Biology, Vol. 1, No. 2. (1 November 2003), e45.
    by Lincoln D Stein, Zhirong Bao, Darin Blasiar, Thomas Blumenthal, Michael R Brent, Nansheng Chen, Asif Chinwalla, Laura Clarke, Chris Clee, Avril Coghlan, Alan Coulson, Peter D'eustachio, David H Fitch, Lucinda A Fulton, Robert E Fulton, Sam Griffiths-Jones, Todd W Harris, Ladeana W Hillier, Ravi Kamath, Patricia E Kuwabara, Elaine R Mardis, Marco A Marra, Tracie L Miner, Patrick Minx, James C Mullikin, Robert W Plumb, Jane Rogers, Jacqueline E Schein, Marc Sohrmann, John Spieth, Jason E Stajich, Chaochun Wei, David Willey, Richard K Wilson, Richard Durbin, Robert H Waterston
  • The genome of the brown alga Ectocarpus siliculosus contains a series of viral DNA pieces, suggesting an ancient association with large dsDNA viruses
    BMC Evolutionary Biology, Vol. 8 (12 April 2008), 110.
    by Nicolas Delaroque, Wilhelm Boland
  • Evolution of sensory complexity recorded in a myxobacterial genome
    PNAS, Vol. 103, No. 41. (10 October 2006), pp. 15200-15205.
  • Comparative genomics of fungal allergens and epitopes shows widespread distribution of closely related allergen and epitope orthologues
    BMC Genomics, Vol. 7 (09 October 2006), 251.
    by Paul Bowyer, Marcin Fraczek, David W Denning
    posted to allergen comparative_genomics fungal genome by stajich on 2007-09-04 22:04:45 as **
  • What can comparative genomics tell us about species concepts in the genus Aspergillus?
    Studies in mycology, Vol. 59 (2007), pp. 11-17.
    by A Rokas, G Payne, ND Fedorova, SE Baker, M Machida, J Yu, DR Georgianna, RA Dean, D Bhatnagar, TE Cleveland, JR Wortman, R Maiti, V Joardar, P Amedeo, DW Denning, WC Nierman
  • Targeted discovery of novel human exons by comparative genomics
    Genome Res. (7 November 2007), gr.7128207.
    by Adam Siepel, Mark Diekhans, Brona Brejova, Laura Langton, Michael Stevens, Charles L Comstock, Colleen Davis, Brent Ewing, Shelly Oommen, Christopher Lau, Hung-Chun Yu, Jianfeng Li, Bruce A Roe, Phil Green, Daniela S Gerhard, Gary Temple, David Haussler, Michael R Brent
  • Levers and fulcrums: progress in cis-regulatory motif models
    Nature Methods, Vol. 5, No. 4., pp. 297-298.
    by Ewan Birney
  • The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
    PLoS Biology, Vol. 1, No. 2. (1 November 2003), e45.
    by Lincoln D Stein, Zhirong Bao, Darin Blasiar, Thomas Blumenthal, Michael R Brent, Nansheng Chen, Asif Chinwalla, Laura Clarke, Chris Clee, Avril Coghlan, Alan Coulson, Peter D'eustachio, David H Fitch, Lucinda A Fulton, Robert E Fulton, Sam Griffiths-Jones, Todd W Harris, Ladeana W Hillier, Ravi Kamath, Patricia E Kuwabara, Elaine R Mardis, Marco A Marra, Tracie L Miner, Patrick Minx, James C Mullikin, Robert W Plumb, Jane Rogers, Jacqueline E Schein, Marc Sohrmann, John Spieth, Jason E Stajich, Chaochun Wei, David Willey, Richard K Wilson, Richard Durbin, Robert H Waterston
  • A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands
    Genes Dev., Vol. 22, No. 1. (1 January 2008), pp. 8-13.
    by Alexander Stark, Natascha Bushati, Calvin H Jan, Pouya Kheradpour, Emily Hodges, Julius Brennecke, David P Bartel, Stephen M Cohen, Manolis Kellis
  • Comparative genome analysis of filamentous fungi reveals gene family expansions associated with fungal pathogenesis.
    PLoS ONE, Vol. 3, No. 6. (2008)
    by DM Soanes, I Alam, M Cornell, HM Wong, C Hedeler, NW Paton, M Rattray, SJ Hubbard, SG Oliver, NJ Talbot
  • Comparative hybridization reveals extensive genome variation in the AIDS-associated pathogen Cryptococcus neoformans
    Genome Biology, Vol. 9 (22 February 2008), R41.
    by Guanggan Hu, Iris Liu, Anita Sham, Jason E Stajich, Fred S Dietrich, James W Kronstad
  • Identification and characterization of insect-specific proteins by genome data analysis
    BMC Genomics, Vol. 8 (04 April 2007), 93.
    by Guojie Zhang, Hongsheng Wang, Junjie Shi, Xiaoling Wang, Hongkun Zheng, Gane K Wong, Terry Clark, Wen Wang, Jun Wang, Le Kang
  • CONTRAST: a discriminative, phylogeny-free approach to multiple informant de novo gene prediction
    Genome Biology, Vol. 8 (20 December 2007), R269.
    by Samuel S Gross, Chuong B Do, Marina Sirota, Serafim Batzoglou
  • notes The fungus Ustilago maydis and humans share disease-related proteins that are not found in Saccharomyces cerevisiae
    BMC Genomics, Vol. 8 (20 December 2007), 473.
    by Martin Muensterkoetter, Gero Steinberg
  • The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication
    Proceedings of the National Academy of Sciences (16 January 2008), 0707293105.
    by Aviva Presser, Michael B Elowitz, Manolis Kellis, Roy Kishony
  • Reliable prediction of regulator targets using 12 Drosophila genomes.
    Genome Res (7 November 2007)
    by Alexander Stark, Pouya Kheradpour, Sushmita Roy, Manolis Kellis
  • Comparative analyses of multi-species sequences from targeted genomic regions.
    Nature, Vol. 424, No. 6950. (14 August 2003), pp. 788-793.
    by JW Thomas, JW Touchman, RW Blakesley, GG Bouffard, SM Beckstrom-Sternberg, EH Margulies, M Blanchette, AC Siepel, PJ Thomas, JC McDowell, B Maskeri, NF Hansen, MS Schwartz, RJ Weber, WJ Kent, D Karolchik, TC Bruen, R Bevan, DJ Cutler, S Schwartz, L Elnitski, JR Idol, AB Prasad, SQ Lee-Lin, VV Maduro, TJ Summers, ME Portnoy, NL Dietrich, N Akhter, K Ayele, B Benjamin, K Cariaga, CP Brinkley, SY Brooks, S Granite, X Guan, J Gupta, P Haghighi, SL Ho, MC Huang, E Karlins, PL Laric, R Legaspi, MJ Lim, QL Maduro, CA Masiello, SD Mastrian, JC McCloskey, R Pearson, S Stantripop, EE Tiongson, JT Tran, C Tsurgeon, JL Vogt, MA Walker, KD Wetherby, LS Wiggins, AC Young, LH Zhang, K Osoegawa, B Zhu, B Zhao, CL Shu, PJ De Jong, CE Lawrence, AF Smit, A Chakravarti, D Haussler, P Green, W Miller, ED Green
  • Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons.
    Mol Biol Evol, Vol. 22, No. 11. (November 2005), pp. 2198-2208.
    by BP Cusack, KH Wolfe
  • HyPhy: hypothesis testing using phylogenies
    Bioinformatics, Vol. 21, No. 5. (01 March 2005), pp. 676-679.
    by SLK Sergei, Simon DW Frost, Spencer V Muse
  • Comparative genomics, minimal gene-sets and the last universal common ancestor.
    Nat Rev Microbiol, Vol. 1, No. 2. (November 2003), pp. 127-136.
    by EV Koonin
  • Multi-domain protein families and domain pairs: comparison with known structures and a random model of domain recombination.
    J Struct Funct Genomics, Vol. 4, No. 2-3. (2003), pp. 67-78.
    by G Apic, W Huber, SA Teichmann
  • The Relationship Between Domain Duplication and Recombination
    Journal of Molecular Biology, Vol. 346, No. 1. (11 February 2005), pp. 355-365.
    by Christine Vogel, Sarah A Teichmann, Jose Pereira-Leal
  • Emulating membrane protein evolution by rational design.
    Science, Vol. 315, No. 5816. (2 March 2007), pp. 1282-1284.
  • Why microbial predators and parasites do not eliminate their prey and hosts.
    Annu Rev Microbiol, Vol. 35 (1981), pp. 113-133.
    posted to comparative_genomics evolution virulence by martainn on 2008-02-14 16:54:16 as **
  • Application of comparative phylogenomics to study the evolution of Yersinia enterocolitica and to identify genetic differences relating to pathogenicity.
    J Bacteriol, Vol. 188, No. 10. (May 2006), pp. 3645-3653.
    by SL Howard, MW Gaunt, J Hinds, AA Witney, R Stabler, BW Wren
    posted to comparative_genomics virulence yersinia by martainn on 2007-05-23 18:28:20 as **
  • The Complete Genome Sequence and Comparative Genome Analysis of the High Pathogenicity Yersinia enterocolitica Strain 8081.
    PLoS Genet, Vol. 2, No. 12. (15 December 2006)
    by Nicholas R R Thomson, Sarah Howard, Brendan W W Wren, Matthew T G T Holden, Lisa Crossman, Gregory L L Challis, Carol Churcher, Karen Mungall, Karen Brooks, Tracey Chillingworth, Theresa Feltwell, Zahra Abdellah, Heidi Hauser, Kay Jagels, Mark Maddison, Sharon Moule, Mandy Sanders, Sally Whitehead, Michael A A Quail, Gordon Dougan, Julian Parkhill, Michael B B Prentice
  • Whole-genome comparison of disease and carriage strains provides insights into virulence evolution in Neisseria meningitidis.
    Proc Natl Acad Sci U S A, Vol. 105, No. 9. (4 March 2008), pp. 3473-3478.
    posted to comparative_genomics virulence by martainn on 2008-03-11 13:49:05 as ** along with 1 person a