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aprasad library [491 articles]

Статьи, недавно добавленные в библиотеку aprasad .
  • The Chromosomal Polymorphism Linked to Variation in Social Behavior in the White-Throated Sparrow (Zonotrichia albicollis) Is a Complex Rearrangement and Suppressor of Recombination
    Genetics, Vol. 179, No. 3. (1 July 2008), pp. 1455-1468.
    by James W Thomas, Mario Caceres, Joshua J Lowman, Caroline B Morehouse, Meghan E Short, Erin L Baldwin, Donna L Maney, Christa L Martin
    posted to thomas rearrangement evolution chromosome by aprasad on 2008-07-23 19:11:43 as **
  • Comparative physical mapping: Universal overgo hybridization probe design and BAC library hybridization.
    Methods in molecular biology (Clifton, N.J.), Vol. 422 (2008), pp. 119-132.
    by JW Thomas
    posted to overgo methods bac_mapping by aprasad on 2008-07-20 21:28:28 as **
  • Coexpression of Linked Genes in Mammalian Genomes Is Generally Disadvantageous
    Mol Biol Evol, Vol. 25, No. 8. (1 August 2008), pp. 1555-1565.
    by Ben-Yang Liao, Jianzhi Zhang
    posted to selection linkage expression evolution by aprasad on 2008-07-17 00:31:56 as ** along with 1 person djkt
  • Automated mapping of large-scale chromatin structure in ENCODE.
    Bioinformatics (Oxford, England) (30 June 2008)
    by Heng Lian, William A A Thompson, Robert Thurman, John A A Stamatoyannopoulos, William Stafford S Noble, Charles E E Lawrence
    posted to regulatory dnasei chromatin by aprasad on 2008-07-17 00:24:20 as ** along with 1 person djkt
  • Characterization of pairwise and multiple sequence alignment errors.
    Gene (3 June 2008)
    by Giddy Landan, Dan Graur
    posted to simulation phylogenetic_accuracy alignment_error alignment by aprasad on 2008-07-14 15:48:01 as **
  • Cell size does not always correspond to genome size: Phylogenetic analysis in geckos questions optimal DNA theories of genome size evolution.
    Zoology (Jena, Germany) (30 June 2008)
    by Zuzana Starostová, Lukáš Kratochvíl, Martin Flajšhans
    posted to nucleotypic_effect genome_size by aprasad on 2008-07-08 16:33:08 as **
  • Phylogenetic Signal in the Eukaryotic Tree of Life
    Science, Vol. 321, No. 5885. (4 July 2008), pp. 121-123.
    by Michael J Sanderson
    posted to phylogenomics phylogenetic_signal phylogenetics by aprasad on 2008-07-07 20:05:55 as ** along with 7 people and 3 groups jlgreen stajich djkt gulsacan dchughes marck caseybrown iSEEM Green Lab Berkeley Mycology
  • 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 ** along with 1 person bpcusack
  • 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
    posted to substitution_rate promoter primate evolution by aprasad on 2008-06-26 21:31:30 as ** along with 2 people and 1 group cisevol Stew cis-regulatory-evolution
  • 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
    posted to methods indel alignment by aprasad on 2008-06-23 19:05:48 as ** along with 18 people and 1 group AbnerCYH michaelbarton bpcusack bmaust gulsacan Schmidtc bpb zwang imtechnology marck ArtemPankin djkt gjuggler hpaces dinnes chad_davis jago phoenixzxl Khavkin's lab
  • 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 **
  • 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 ****
  • 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
    posted to taxon_sampling phylogenomics phylogenetics phylogenetic_accuracy by aprasad on 2008-06-19 21:49:06 as **
  • 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
    posted to skin human_microbiome bacteria by aprasad on 2008-05-28 15:47:29 as ** along with 3 people and 1 group sconlan djkt caseybrown iSEEM
  • 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
    posted to substitution_rate evolution coding cns by aprasad on 2008-05-22 20:05:25 as ** along with 4 people and 1 group djkt cjeans zwang cisevol cis-regulatory-evolution
  • 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
    posted to mutation_rate indel human_genome evolution drosophila by aprasad on 2008-05-19 15:38:57 as ** along with 5 people brant djkt lusk biomcgary gjuggler
  • 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
    posted to phylogenetics lineage_sorting drosophila by aprasad on 2008-05-16 21:17:53 as ** along with 1 person mailund
  • 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 **
  • The impact of recombination on nucleotide substitutions in the human genome.
    PLoS genetics, Vol. 4, No. 5. (May 2008)
    by L Duret, PF Arndt
    posted to recombination mutation_rate isochore human_genome gc by aprasad on 2008-05-15 15:46:09 as ** along with 2 people balicea gjuggler
  • Physical mapping in large genomes: accelerating anchoring of BAC contigs to genetic maps through in silico analysis.
    Funct Integr Genomics, Vol. 8, No. 1. (February 2008), pp. 29-32.
    by E Paux, F Legeai, N Guilhot, AF Adam-Blondon, M Alaux, J Salse, P Sourdille, P Leroy, C Feuillet
    posted to fpc bac_mapping bac by aprasad on 2008-05-13 15:45:28 as ** along with 1 person urgi
  • Analysis of Sequence Conservation at Nucleotide Resolution
    PLoS Computational Biology, Vol. 3, No. 12. (1 December 2007), e254.
    by Saurabh Asthana, Mikhail Roytberg, John Stamatoyannopoulos, Shamil Sunyaev
    posted to methods mcs conservation comparative_genomics by aprasad on 2008-05-13 15:42:29 as ** along with 4 people djkt GustavoLacerda nklee maximilianh
  • Genomic clocks and evolutionary timescales.
    Trends Genet, Vol. 19, No. 4. (April 2003), pp. 200-206.
    by S Blair Hedges, S Kumar
    posted to review molecular_clock methods by aprasad on 2008-05-13 01:20:45 as ** along with 1 person bandrewfox
  • Selection on Major Components of Angiosperm Genomes
    Science, Vol. 320, No. 5875. (25 April 2008), pp. 484-486.
    by Brandon S Gaut, Jeffrey Ross-Ibarra
    posted to selection plant genome_size evolution by aprasad on 2008-05-12 20:01:54 as ** along with 4 people and 1 group echinotrix ArtemPankin timflutre biomcgary Khavkin's lab
  • Population size and genome size in fishes: a closer look.
    Genome / National Research Council Canada = Génome / Conseil national de recherches Canada, Vol. 51, No. 4. (April 2008), pp. 309-313.
    by TR Gregory, JD Witt
    posted to population_genetics genome_size fish by aprasad on 2008-05-12 19:04:02 as **
  • High-Resolution Mapping and Characterization of Open Chromatin across the Genome.
    Cell, Vol. 132, No. 2. (25 January 2008), pp. 311-322.
    by AP Boyle, S Davis, HP Shulha, P Meltzer, EH Margulies, Z Weng, TS Furey, GE Crawford
    posted to human_genome epigenetics chromatin by aprasad on 2008-05-10 14:23:20 as ** along with 3 people djkt bootsy epigenetics
  • Genome size, cell size, and the evolution of enucleated erythrocytes in attenuate salamanders.
    Zoology (Jena, Germany), Vol. 111, No. 3. (1 May 2008), pp. 218-230.
    by Rachel Lockridge L Mueller, T Ryan Gregory, Sean M M Gregory, Alice Hsieh, Jeffrey L L Boore
    posted to nucleotypic_effect genome_size by aprasad on 2008-05-09 18:02:15 as **
  • The evolution of genome size in ants
    BMC Evolutionary Biology, Vol. 8 (26 February 2008), 64.
    by Neil D Tsutsui, Andrew V Suarez, Joseph C Spagna, Spencer J Johnston
    posted to nucleotypic_effect genome_size evolution by aprasad on 2008-05-09 17:59:11 as **
  • Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?
    BMC Evolutionary Biology, Vol. 8 (26 March 2008), 95.
    by Stefanie Hartmann, Todd J Vision
    posted to phylogenomics phylogenetics indel est alignment by aprasad on 2008-05-09 17:56:28 as ** along with 2 people and 1 group stajich Patola Berkeley Mycology
  • Mapping and sequencing of structural variation from eight human genomes
    Nature, Vol. 453, No. 7191., pp. 56-64.
    by Jeffrey M Kidd, Gregory M Cooper, William F Donahue, Hillary S Hayden, Nick Sampas, Tina Graves, Nancy Hansen, Brian Teague, Can Alkan, Francesca Antonacci, Eric Haugen, Troy Zerr, Alice N Yamada, Peter Tsang, Tera L Newman, Eray Tüzün, Ze Cheng, Heather M Ebling, Nadeem Tusneem, Robert David, Will Gillett, Karen A Phelps, Molly Weaver, David Saranga, Adrianne Brand, Wei Tao, Erik Gustafson, Kevin Mckernan, Lin Chen, Maika Malig, Joshua D Smith, Joshua M Korn, Steven A Mccarroll, David A Altshuler, Daniel A Peiffer, Michael Dorschner, John Stamatoyannopoulos, David Schwartz, Deborah A Nickerson, James C Mullikin, Richard K Wilson, Laurakay Bruhn, Maynard V Olson, Rajinder Kaul, Douglas R Smith, Evan E Eichler
    posted to structural_variation human_genome genomics evolution by aprasad on 2008-05-08 23:27:36 as ** along with 15 people and 1 group jyuh chrisamiller maximilianh vplagnol kintoki chad_davis Ema hpaces kaniko psique shikin balicea djkt dchughes bpb GeneGo
  • Incorporating gaps as phylogenetic characters across eight DNA regions: ramifications for North American Psoraleeae (Leguminosae).
    Molecular phylogenetics and evolution, Vol. 46, No. 2. (February 2008), pp. 532-546.
    by AN Egan, KA Crandall
    posted to review phylogenetics methods indel by aprasad on 2008-05-07 19:35:44 as **
  • Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Datasets.
    Molecular biology and evolution (2 May 2008)
    by Arjun B Prasad, Marc W Allard, Eric D Green
    posted to tree placental phylogenomics phylogenetics nisc mammal atlantogenata by aprasad on 2008-05-07 13:34:54 as **
  • Computation and Analysis of Genomis Multi-Sequence Alignments.
    Annu Rev Genomics Hum Genet (9 May 2007)
    by Mathieu Blanchette
    posted to review methods alignment by aprasad on 2008-05-06 19:35:12 as ** along with 4 people and 1 group dpollard lilou nklee maximilianh EisenLab
  • Large-scale genomic 2D visualization reveals extensive CG-AT skew correlation in bird genomes
    BMC Evolutionary Biology, Vol. 7 (23 November 2007), 234.
    by Xuegong Deng, Ilkka Havukkala, Xuemei Deng
    posted to gc bird by aprasad on 2008-05-06 19:31:30 as **
  • Phylogenetic Mixture Models Can Reduce Node-Density Artifacts
    Systematic Biology, Vol. 57, No. 2. (2008), pp. 286-293.
    by Chris Venditti, Andrew Meade, Mark Pagel
    posted to simulation phylogenetics mixture_models methods long_branch_attraction likelihood by aprasad on 2008-04-30 17:17:03 as **
  • A simulation study of the reliability of recombination detection methods.
    Molecular biology and evolution, Vol. 18, No. 10. (October 2001), pp. 1929-1939.
    by C Wiuf, T Christensen, J Hein
    posted to simulation recombination methods incongruence bacteria by aprasad on 2008-04-28 16:35:34 as **
  • Gene conversion and the evolution of euryarchaeal chaperonins: a maximum likelihood-based method for detecting conflicting phylogenetic signals.
    Journal of molecular evolution, Vol. 55, No. 2. (August 2002), pp. 232-245.
    by JM Archibald, AJ Roger
    posted to phylogenetics lrt likelihood congruence by aprasad on 2008-04-26 14:18:59 as **
  • Influence Function for Robust Phylogenetic Reconstructions
    Mol Biol Evol, Vol. 25, No. 5. (1 May 2008), pp. 869-873.
    by Avner Bar-Hen, Mahendra Mariadassou, Marie-Anne Poursat, Philippe Vandenkoornhuyse
    posted to phylogenetics methods likelihood congruence by aprasad on 2008-04-26 13:55:27 as **
  • Analysis of chimpanzee history based on genome sequence alignments.
    PLoS genetics, Vol. 4, No. 4. (April 2008)
    by JL Caswell, S Mallick, DJ Richter, J Neubauer, C Schirmer, S Gnerre, D Reich
    posted to tree lineage_sorting human chimp alignment by aprasad on 2008-04-25 20:24:29 as ** along with 1 person reyez
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