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aprasads library [484 articles]

Neue Artikel in aprasads library ordered by importance.
  • Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution.
    Nature, Vol. 432, No. 7018. (9 December 2004), pp. 695-716.
    by LW Hillier, W Miller, E Birney, W Warren, RC Hardison, CP Ponting, P Bork, DW Burt, MA Groenen, ME Delany, JB Dodgson, AT Chinwalla, PF Cliften, SW Clifton, KD Delehaunty, C Fronick, RS Fulton, TA Graves, C Kremitzki, D Layman, V Magrini, JD McPherson, TL Miner, P Minx, WE Nash, MN Nhan, JO Nelson, LG Oddy, CS Pohl, J Randall-Maher, SM Smith, JW Wallis, SP Yang, MN Romanov, CM Rondelli, B Paton, J Smith, D Morrice, L Daniels, HG Tempest, L Robertson, JS Masabanda, DK Griffin, A Vignal, V Fillon, L Jacobbson, S Kerje, L Andersson, RP Crooijmans, J Aerts, JJ van der Poel, H Ellegren, RB Caldwell, SJ Hubbard, DV Grafham, AM Kierzek, SR McLaren, IM Overton, H Arakawa, KJ Beattie, Y Bezzubov, PE Boardman, JK Bonfield, MD Croning, RM Davies, MD Francis, SJ Humphray, CE Scott, RG Taylor, C Tickle, WR Brown, J Rogers, JM Buerstedde, SA Wilson, L Stubbs, I Ovcharenko, L Gordon, S Lucas, MM Miller, H Inoko, T Shiina, J Kaufman, J Salomonsen, K Skjoedt, GK Wong, J Wang, B Liu, J Wang, J Yu, H Yang, M Nefedov, M Koriabine, PJ Dejong, L Goodstadt, C Webber, NJ Dickens, I Letunic, M Suyama, D Torrents, C von Mering, EM Zdobnov, K Makova, A Nekrutenko, L Elnitski, P Eswara, DC King, S Yang, S Tyekucheva, A Radakrishnan, RS Harris, F Chiaromonte, J Taylor, J He, M Rijnkels, S Griffiths-Jones, A Ureta-Vidal, MM Hoffman, J Severin, SM Searle, AS Law, D Speed, D Waddington, Z Cheng, E Tuzun, E Eichler, Z Bao, P Flicek, DD Shteynberg, MR Brent, JM Bye, EJ Huckle, S Chatterji, C Dewey, L Pachter, A Kouranov, Z Mourelatos, AG Hatzigeorgiou, AH Paterson, R Ivarie, M Brandstrom, E Axelsson, N Backstrom, S Berlin, MT Webster, O Pourquie, A Reymond, C Ucla, SE Antonarakis, M Long, JJ Emerson, E Betrán, I Dupanloup, H Kaessmann, AS Hinrichs, G Bejerano, TS Furey, RA Harte, B Raney, A Siepel, WJ Kent, D Haussler, E Eyras, R Castelo, JF Abril, S Castellano, F Camara, G Parra, R Guigo, G Bourque, G Tesler, PA Pevzner, A Smit, LA Fulton, ER Mardis, RK Wilson,
  • Natural selection on protein-coding genes in the human genome
    Nature, Vol. 437, No. 7062., pp. 1153-1157.
    by Carlos D Bustamante, Adi Fledel-Alon, Scott Williamson, Rasmus Nielsen, Melissa T Hubisz, Stephen Glanowski, David M Tanenbaum, Thomas J White, John J Sninsky, Ryan D Hernandez, Daniel Civello, Mark D Adams, Michele Cargill, Andrew G Clark
  • Moving primate genomics beyond the chimpanzee genome
    Trends in Genetics, Vol. 21, No. 9. (September 2005), pp. 511-517.
    by Morris Goodman, Lawrence I Grossman, Derek E Wildman
    posted to tree review primate by aprasad on 2008-06-19 22:16:40 as ****
  • Alignment Uncertainty and Genomic Analysis
    Science, Vol. 319, No. 5862. (25 January 2008), pp. 473-476.
    by Karen M Wong, Marc A Suchard, John P Huelsenbeck
  • The mode and tempo of genome size evolution in eukaryotes.
    Genome Res (9 April 2007)
    by Matthew J J Oliver, Dmitri Petrov, David Ackerly, Paul Falkowski, Oscar M M Schofield
  • Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice.
    Genome Res, Vol. 16, No. 10. (October 2006), pp. 1262-1269.
    by B Piegu, R Guyot, N Picault, A Roulin, A Saniyal, H Kim, K Collura, DS Brar, S Jackson, RA Wing, O Panaud
    posted to repeats retrotransposon genome_size plants by aprasad on 2006-11-17 15:56:32 as ****
  • Conserved noncoding sequences are selectively constrained and not mutation cold spots
    Nature Genetics, Vol. 38, No. 2. (25 December 2005), pp. 223-227.
    by Jared A Drake, Christine Bird, James Nemesh, Daryl J Thomas, Christopher Newton-Cheh, Alexandre Reymond, Laurent Excoffier, Homa Attar, Stylianos E Antonarakis, Emmanouil T Dermitzakis, Joel N Hirschhorn
  • The dog genome: survey sequencing and comparative analysis.
    Science, Vol. 301, No. 5641. (26 September 2003), pp. 1898-1903.
    by EF Kirkness, V Bafna, AL Halpern, S Levy, K Remington, DB Rusch, AL Delcher, M Pop, W Wang, CM Fraser, JC Venter
    posted to dog genome sequence whole_genome by aprasad on 2005-12-19 23:13:10 as **** along with 1 person GustavoLacerda
  • Initial sequence of the chimpanzee genome and comparison with the human genome
    Nature, Vol. 437, No. 7055., pp. 69-87.
    by The
  • 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,
  • Diversity and clustered distribution of retrotransposable elements in the compact genome of the pufferfish Tetraodon nigroviridis.
    Cytogenet Genome Res, Vol. 110, No. 1-4. (2005), pp. 522-536.
  • Genome-scale approaches to resolving incongruence in molecular phylogenies.
    Nature, Vol. 425, No. 6960. (23 October 2003), pp. 798-804.
    by A Rokas, BL Williams, N King, SB Carroll
  • Evidence of functional selection pressure for alternative splicing events that accelerate evolution of protein subsequences.
    Proc Natl Acad Sci U S A, Vol. 102, No. 38. (20 September 2005), pp. 13526-13531.
    by Y Xing, C Lee
  • Genomic multiple sequence alignments: refinement using a genetic algorithm.
    BMC Bioinformatics, Vol. 6 (8 August 2005)
    by C Wang, EJ Lefkowitz
    posted to alignment genomic msa by aprasad on 2005-10-03 20:22:46 as ****
  • Distribution and intensity of constraint in mammalian genomic sequence.
    Genome Res, Vol. 15, No. 7. (July 2005), pp. 901-913.
    by GM Cooper, EA Stone, G Asimenos, ED Green, S Batzoglou, A Sidow
  • Survey of long terminal repeat retrotransposons of domesticated silkworm (Bombyx mori).
    Insect Biochem Mol Biol, Vol. 35, No. 8. (August 2005), pp. 921-929.
    posted to repeats retrotransposon silkworm transposon by aprasad on 2005-08-24 21:06:59 as ****
  • ABC: software for interactive browsing of genomic multiple sequence alignment data.
    BMC Bioinformatics, Vol. 5, No. 1. (8 December 2004)
    by GM Cooper, SA Singaravelu, A Sidow
  • Functional constraint and small insertions and deletions in the ENCODE regions of the human genome
    Genome Biology, Vol. 8 (04 September 2007), R180.
    by Taane G Clark, Toby Andrew, Gregory M Cooper, Elliot H Marguiles, James C Mullikin, David J Balding
  • Phylogenomics of nonavian reptiles and the structure of the ancestral amniote genome.
    Proc Natl Acad Sci U S A (16 February 2007)
    by Andrew M M Shedlock, Christopher W W Botka, Shaying Zhao, Jyoti Shetty, Tingting Zhang, Jun S S Liu, Patrick J J Deschavanne, Scott V V Edwards
    posted to genome_evolution genomics intrinsic_features phylogenomics reptile by aprasad on 2007-02-27 20:40:36 as ***
  • Retroposed Elements as Archives for the Evolutionary History of Placental Mammals.
    PLoS Biol, Vol. 4, No. 4. (14 March 2006)
    by Jan Ole O Kriegs, Gennady Churakov, Martin Kiefmann, Ursula Jordan, Jürgen Brosius, Jürgen Schmitz
  • Short retroposons in eukaryotic genomes.
    Int Rev Cytol, Vol. 247 (2005), pp. 165-221.
  • Large-scale structure of genomic methylation patterns.
    Genome Res (19 December 2005)
    by Robert A A Rollins, Fatemeh Haghighi, John R R Edwards, Rajdeep Das, Michael Q Q Zhang, Jingyue Ju, Timothy H H Bestor
  • The diversity of LTR retrotransposons.
    Genome Biol, Vol. 5, No. 6. (2004)
    by ER Havecker, X Gao, DF Voytas
    posted to repeats transposon by aprasad on 2005-12-30 19:17:03 as *** along with 2 people dandaman cellison
  • Sequence gaps join mice and men: phylogenetic evidence from deletions in two proteins.
    Mol Biol Evol, Vol. 19, No. 11. (November 2002), pp. 2035-2037.
    by C Poux, T van Rheede, O Madsen, WW de Jong
    posted to tree rare_genomic_characters phylogenetics euarchontoglires by aprasad on 2005-12-28 16:58:28 as ***
  • A fine-scale map of recombination rates and hotspots across the human genome.
    Science, Vol. 310, No. 5746. (14 October 2005), pp. 321-324.
  • Why do human diversity levels vary at a megabase scale?
    Genome Res, Vol. 15, No. 9. (September 2005), pp. 1222-1231.
    by I Hellmann, K Prüfer, H Ji, MC Zody, S Pääbo, SE Ptak
  • Size of the protein-coding genome and rate of molecular evolution.
    J Hum Genet, Vol. 50, No. 5. (2005), pp. 217-229.
    by ZA Rajic, GM Jankovic, A Vidovic, NM Milic, D Skoric, M Pavlovic, V Lazarevic
  • Striking nucleotide frequency pattern at the borders of highly conserved vertebrate non-coding sequences.
    Trends Genet, Vol. 21, No. 8. (August 2005), pp. 436-440.
    by K Walter, I Abnizova, G Elgar, WR Gilks
  • Assessing the Evolutionary Impact of Amino Acid Mutations in the Human Genome
    PLoS Genet, Vol. 4, No. 5. (30 May 2008), e1000083.
    by Adam R Boyko, Scott H Williamson, Amit R Indap, Jeremiah D Degenhardt, Ryan D Hernandez, Kirk E Lohmueller, Mark D Adams, Steffen Schmidt, John J Sninsky, Shamil R Sunyaev, Thomas J White, Rasmus Nielsen, Andrew G Clark, Carlos D Bustamante
    posted to selection population_genetics mutation_rate fitness aa by aprasad on 2008-06-30 19:27:26 as **
  • EVOLUTION: Building the Tree of Life, Genome by Genome
    Science, Vol. 320, No. 5884. (27 June 2008), pp. 1716-1717.
    by Elizabeth Pennisi
    posted to review phylogenomics by aprasad on 2008-06-27 23:43:07 as ** along with 2 people gulsacan renatomilani
  • Phylogenetic incongruence in the Drosophila melanogaster species group.
    Molecular phylogenetics and evolution, Vol. 43, No. 3. (June 2007), pp. 1138-1150.
    by A Wong, JD Jensen, JE Pool, CF Aquadro
    posted to phylogenetics incongruence by aprasad on 2008-06-27 19:23:40 as **
  • A Mixed Branch Length Model of Heterotachy Improves Phylogenetic Accuracy
    Mol Biol Evol, Vol. 25, No. 6. (1 June 2008), pp. 1054-1066.
    by Bryan Kolaczkowski, Joseph W Thornton
    posted to simulation phylogenetics model evolution by aprasad on 2008-06-26 21:39:09 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
  • jModelTest: Phylogenetic Model Averaging
    Mol Biol Evol, Vol. 25, No. 7. (1 July 2008), pp. 1253-1256.
    by David Posada
    posted to tools model_choice methods by aprasad on 2008-06-26 21:29:49 as **
  • Morphology and Placental Mammal Phylogeny
    Systematic Biology, Vol. 57, No. 3. (2008), pp. 499-503.
    by Mark S Springer, Robert W Meredith, Eduardo Eizirik, Emma Teeling, William J Murphy
    posted to tree phylogenetics morphology mammal by aprasad on 2008-06-24 21:17:43 as **
  • Hemiplasy: A New Term in the Lexicon of Phylogenetics
    Systematic Biology, Vol. 57, No. 3. (2008), pp. 503-507.
    by John C Avise, Terence J Robinson
    posted to lineage_sorting by aprasad on 2008-06-24 21:13:18 as **
  • Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis
    Science, Vol. 320, No. 5883. (20 June 2008), pp. 1632-1635.
    by Ari Loytynoja, Nick Goldman
  • primetv: A viewer for reconciled trees
    BMC Bioinformatics, Vol. 8 (07 May 2007), 148.
    by Bengt Sennblad, Eva Schreil, Ann-Charlotte B Sonnhammer, Jens Lagergren, Lars Arvestad
    posted to tree_visualization tool methods by aprasad on 2008-06-19 22:45:22 as **
  • A mobile element based phylogeny of Old World monkeys
    Molecular Phylogenetics and Evolution, Vol. 37, No. 3. (December 2005), pp. 872-880.
    by Jinchuan Xing, Hui Wang, Kyudong Han, David A Ray, Cheney H Huang, Leona G Chemnick, Caro-Beth Stewart, Todd R Disotell, Oliver A Ryder, Mark A Batzer
    posted to tree rare_genomic_characters phylogenetics catarrhini by aprasad on 2008-06-19 22:19:37 as **
  • More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy.
    Molecular biology and evolution, Vol. 22, No. 5. (May 2005), pp. 1337-1344.
    by A Rokas, SB Carroll
  • Molecular phylogeny and divergence times of Malagasy tenrecs: influence of data partitioning and taxon sampling on dating analyses.
    BMC Evolutionary Biology, Vol. 8 (31 March 2008), 102.
    by Celine Poux, Ole Madsen, Julian Glos, Wilfried W de Jong, Miguel Vences
    posted to time_tree time methods afrotheria by aprasad on 2008-06-19 20:24:39 as **
  • Uprobe 2008: an online resource for universal overgo hybridization-based probe retrieval and design.
    Nucleic acids research (30 May 2008)
    by Robert T T Sullivan, Caroline B B Morehouse, , James W W Thomas
    posted to uprobe overgo by aprasad on 2008-06-17 21:56:22 as **
  • Genome size diversity in the family Drosophilidae
    Heredity, Vol. aop, No. current.
    by TR Gregory, JS Johnston
    posted to genome_size drosophila by aprasad on 2008-06-17 21:54:27 as **
  • A diversity profile of the human skin microbiota.
    Genome research (23 May 2008)
    by Elizabeth A A Grice, Heidi H H Kong, Gabriel Renaud, Alice C C Young, , Gerard G G Bouffard, Robert W W Blakesley, Tyra G G Wolfsberg, Maria L L Turner, Julia A A Segre
  • Flying lemurs - the "flying tree shrews"? Molecular cytogenetic evidence for a Scandentia-Dermoptera sister clade
    BMC Biology, Vol. 6 (01 May 2008), 18.
    by Wenhui Nie, Beiyuan Fu, Patricia CM O'Brien, Jinhuan Wang, Weiting Su, Alongklod Tanomtong, Vitaly Volobouev, Malcolm A Ferguson-Smith, Fengtang Yang
    posted to primate phylogenetics cytogenetics by aprasad on 2008-05-28 14:15:04 as **
  • 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
  • Investigations of Oligonucleotide Usage Variance Within and Between Prokaryotes
    PLoS Computational Biology, Vol. 4, No. 4. (2008), e1000057.
    by Jon Bohlin, Eystein Skjerve, David W Ussery
    posted to motif gc by aprasad on 2008-05-22 19:38:54 as ** along with 1 person djkt
  • Sequence Context affects the rate of short insertions and deletions in flies and primates
    Genome Biology, Vol. 9 (21 February 2008), R37.
    by Amos Tanay, Eric D Siggia
  • Widespread Discordance of Gene Trees with Species Tree in Drosophila: Evidence for Incomplete Lineage Sorting
    PLoS Genetics, Vol. 2, No. 10. (1 October 2006), e173.
    by Daniel A Pollard, Venky N Iyer, Alan M Moses, Michael B Eisen
  • Darwin's dilemma: the realities of the Cambrian ‘explosion’
    Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 361, No. 1470. (29 June 2006), pp. 1069-1083.
    by Simon C Morris
    posted to molecular_clock evolution cambrian by aprasad on 2008-05-16 21:02:17 as **
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