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タグ: phylogeny [679 articles]

Recent papers classified by the tag phylogeny.
  • Toward Resolving the Eukaryotic Tree: The Phylogenetic Positions of Jakobids and Cercozoans
    Current Biology, Vol. 17, No. 16. (21 August 2007), pp. 1420-1425.
    by Naiara Rodriguez-Ezpeleta, Henner Brinkmann, Gertraud Burger, Andrew J Roger, Michael W Gray, Herve Philippe, Franz B Lang
    posted to eukaryota evolution phylogeny specy by zwang on 2007-08-28 04:01:45 as ** along with 1 person asddd
  • Using Phylogeny to Improve Genome-Wide Distant Homology Recognition
    PLoS Computational Biology, Vol. 3, No. 1. (1 January 2007), e3.
    by Sanne Abeln, Carlo Teubner, Charlotte M Deane
    posted to genome-wide homology phylogeny by zwang on 2007-04-12 10:35:42 as ****
  • Phylogenetic Inference Using Whole Genomes
    Annual Review of Genomics and Human Genetics, Vol. 9, No. 1. (2008), pp. 217-231.
    by Bruce Rannala, Ziheng Yang
    posted to phylogeny genome by zwang on 2008-09-04 06:33:51 as ** along with 3 people druvus aprasad gjuggler
  • High-resolution species trees without concatenation
    PNAS, Vol. 104, No. 14. (3 April 2007), pp. 5936-5941.
    by Scott V Edwards, Liang Liu, Dennis K Pearl
    posted to phylogeny specy by zwang on 2007-04-06 05:45:14 as ** along with 3 people and 1 group stevanspringer operon aprasad FAB-lab
  • A Comprehensive Phylogeny of Beetles Reveals the Evolutionary Origins of a Superradiation
    Science, Vol. 318, No. 5858. (21 December 2007), pp. 1913-1916.
    by Toby Hunt, Johannes Bergsten, Zuzana Levkanicova, Anna Papadopoulou, Oliver S John, Ruth Wild, Peter M Hammond, Dirk Ahrens, Michael Balke, Michael S Caterino, Jesus Gomez-Zurita, Ignacio Ribera, Timothy G Barraclough, Milada Bocakova, Ladislav Bocak, Alfried P Vogler
    posted to evolution phylogeny by zwang on 2007-12-21 09:47:02 as *** along with 2 people dinnes youdon
  • Constraint-based functional similarity of metabolic genes: going beyond network topology
    Bioinformatics, Vol. 23, No. 16. (15 August 2007), pp. 2139-2146.
    by Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y Pinter
    posted to gene network phylogeny by zwang on 2007-09-17 09:39:55 as ***
  • Measures of Clade Confidence Do Not Correlate with Accuracy of Phylogenetic Trees
    PLoS Computational Biology, Vol. 3, No. 3. (1 March 2007), e51.
    by Barry G Hall, Stephen J Salipante
    posted to accuracy clade confidence phylogeny by zwang on 2007-04-02 09:10:51 as *** along with 1 person operon
  • Phylogenetic Methodology for Detecting Protein Interactions
    Mol Biol Evol, Vol. 24, No. 3. (1 March 2007), pp. 650-659.
    by Peter J Waddell, Hirohisa Kishino, Rissa Ota
    posted to interaction phylogeny protein by zwang on 2007-03-30 08:51:26 as *** along with 2 people and 1 group stevanspringer tale FAB-lab
  • Deciphering RNA structural diversity and systematic phylogeny from microbial metagenomes
    Nucl. Acids Res., Vol. 35, No. 7. (1 April 2007), pp. 2283-2294.
    by Yanglong Zhu, Dileep K Pulukkunat, Yong Li
    posted to diversity phylogeny rna structure by zwang on 2007-05-08 12:14:37 as ***
  • Non-random coextinctions in phylogenetically structured mutualistic networks
    Nature, Vol. 448, No. 7156., pp. 925-928.
    by Enrico L Rezende, Jessica E Lavabre, Paulo R Guimarães, Pedro Jordano, Jordi Bascompte
    posted to co-extinction mutation network phylogeny by zwang on 2007-08-28 04:03:13 as *** along with 1 person cmm
  • A Phylogenetic Method for Detecting Positive Epistasis in Gene Sequences and Its Application to RNA Virus Evolution
    Mol Biol Evol, Vol. 23, No. 9. (1 September 2006), pp. 1724-1730.
    by Beth Shapiro, Andrew Rambaut, Oliver G Pybus, Edward C Holmes
    posted to evolution phylogeny positiveepistasis by zwang on 2007-04-16 14:16:08 as * along with 1 person and 1 group stevanspringer FAB-lab
  • Evolution of genes and genomes on the Drosophila phylogeny
    Nature, Vol. 450, No. 7167. (November 2007), pp. 203-218.
    posted to evolution gene genome phylogeny by zwang on 2007-11-20 09:04:25 as **** along with 19 people and 6 groups operon tmmurali indigoviolet djkt timflutre stajich Garamonfok lp2 CharlesM hpaces caseybrown emptyhb urgi noor PetrovLab isimpson balicea cisevol hdopazo Bioinformatics EisenLab csb_journal_club_public Berkeley Mycology BergmanLab Drosophila-Genetics-Genomics-2008
  • Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices
    BMC Bioinformatics, Vol. 8 (09 January 2007), 6.
    by Roger A Craig, Li Liao
    posted to interaction phylogeny prediction protein by zwang on 2007-04-16 13:57:11 as *** along with 1 person iris_2001
  • Calculating Bootstrap Probabilities of Phylogeny Using Multilocus Sequence Data
    Mol Biol Evol, Vol. 25, No. 5. (1 May 2008), pp. 960-971.
    by Tae-Kun Seo
    posted to bootstrap evolution phylogeny sequence by zwang on 2008-04-15 05:10:40 as ** along with 1 person adacier
  • Bayesian support is larger than bootstrap support in phylogenetic inference: a mathematical argument
    Math Med Biol, Vol. 24, No. 4. (1 December 2007), pp. 401-411.
    by Tom Britton, Bodil Svennblad, Per Erixon, Bengt Oxelman
    posted to bayesian bootstrap phylogeny by zwang on 2008-03-16 15:10:59 as *** along with 1 person adacier
  • SimulFold: Simultaneously Inferring RNA Structures Including Pseudoknots, Alignments, and Trees Using a Bayesian MCMC Framework
    PLoS Computational Biology, Vol. 3, No. 8. (1 August 2007), e149.
    by Irmtraud M Meyer, István Miklós
    posted to alignment bayesian phylogeny rna structure by zwang on 2007-09-13 17:47:28 as **** along with 3 people raylim cabbagezs bertelsen
  • Mutual information without the influence of phylogeny or entropy dramatically improves residue contact prediction
    Bioinformatics, Vol. 24, No. 3. (1 February 2008), pp. 333-340.
    by SD Dunn, LM Wahl, GB Gloor
    posted to contact interaction mi phylogeny prediction residue by zwang on 2008-05-09 02:44:06 as *** along with 3 people and 1 group bicko sobolevnrm marck baker-group
  • The prokaryotic tree of life: past, present...and future?
    Trends in Ecology & Evolution, Vol. 23, No. 5. (May 2008), pp. 276-281.
    by James O Mcinerney, James A Cotton, Davide Pisani
    posted to evolution phylogeny prokaryote by zwang on 2008-06-16 01:48:25 as ** along with 2 people and 2 groups balicea jlgreen Green Lab iSEEM
  • Global molecular phylogeography reveals persistent Arctic circumpolar isolation in a marine planktonic protist
    PNAS, Vol. 104, No. 12. (20 March 2007), pp. 5002-5007.
    by Kate F Darling, Michal Kucera, Christopher M Wade
    posted to phylogeny phylogeography by zwang on 2007-03-23 10:01:27 as **
  • Phylogenetic exploration of bacterial genomic rearrangements
    Bioinformatics, Vol. 23, No. 9. (1 May 2007), pp. 1172-1174.
    by Romain Fremez, Thomas Faraut, Gwennaele Fichant, Jerome Gouzy, Yves Quentin
    posted to bacterial genome phylogeny by zwang on 2007-05-10 08:13:26 as ** along with 1 person operon
  • Predicting Protein Function with Hierarchical Phylogenetic Profiles: The Gene3D Phylo-Tuner Method Applied to Eukaryotic Genomes
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e237.
    by Juan A Ranea, Corin Yeats, Alastair Grant, Christine A Orengo
    posted to eukaryota genome hierarchical phylogeny prediction protein by zwang on 2007-12-10 04:43:48 as *** along with 4 people eckart_bindewald skhadar asddd hpaces
  • New Taxonomy and the Origin of Species
    PLoS Biology, Vol. 5, No. 7. (1 July 2007), e194.
    by Shai Meiri, Georgina M Mace
    posted to evolution phylogeny specy by zwang on 2007-08-29 02:19:57 as ** along with 1 person asddd
  • 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 alignment evolution phylogeny by zwang on 2008-06-25 05:44:44 as *** along with 22 people and 3 groups bpcusack chad_davis hpaces dinnes gjuggler djkt ArtemPankin phoenixzxl jago marck imtechnology aprasad bmaust bpb michaelbarton Schmidtc AbnerCYH gulsacan emptyhb jlgreen marti nuin Khavkin's lab iSEEM Green Lab
  • Phylogenetic analysis of condensation domains in NRPS sheds light on their functional evolution
    BMC Evolutionary Biology, Vol. 7 (16 May 2007), 78.
    by Chrstian Rausch, Ilka Hoof, Tilmann Weber, Wolfgang Wohlleben, Daniel H Huson
    posted to domain evolution phylogeny by zwang on 2007-06-14 02:21:21 as **
  • Phylogenetic classification and the universal tree.
    Science, Vol. 284, No. 5423. (25 June 1999), pp. 2124-2129.
    by WF Doolittle
    posted to phylogeny by ykadi on 2007-06-26 14:08:35 as ** along with 2 people bayesian eweaver
  • Interpreting the universal phylogenetic tree.
    Proc Natl Acad Sci U S A, Vol. 97, No. 15. (18 July 2000), pp. 8392-8396.
    by CR Woese
    posted to phylogeny by ykadi on 2007-06-26 14:10:03 as ** along with 4 people bayesian gulsacan hdsskin fhsantanna
  • Inferring protein interactions from phylogenetic distance matrices.
    Bioinformatics, Vol. 19, No. 16. (1 November 2003), pp. 2039-2045.
    by J Gertz, G Elfond, A Shustrova, M Weisinger, M Pellegrini, S Cokus, B Rothschild
    posted to inference interaction phylogeny protein by wnpx on 2006-08-24 18:48:09 as ** along with 3 people and 1 group lfriedl balajis ruvido kdl
  • Phylogeny of the arthropod endosymbiont Wolbachia based on the wsp gene
    Insect Molecular Biology, Vol. 8, No. 3. (1999), pp. 399-408.
    by MMM van Meer, J Witteveldt, R Stouthamer
    posted to arthropod bacteria endosymbiont genetic insect parasite phylogeny wolbachia wsp by vhphys on 2008-03-13 13:23:48 as **
  • A Hierarchical View of Convergent Evolution in Microbial Eukaryotes
    Journal of Eukaryotic Microbiology, Vol. 55, No. 2. (April 2008), pp. 59-68.
    by Brian S Leander
    posted to eukaryote evolution phylogeny by vaulot on 2008-05-13 01:41:50 as *** along with 1 person and 2 groups jdelcampo Microbial-Ecology Papers recommended by the Roscoff Plankton Group
  • Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species.
    Proc Natl Acad Sci U S A (25 February 2008)
    by Cindy Martens, Klaas Vandepoele, Yves Van de Peer
    posted to alveolate eukaryote genome phylogeny by vaulot on 2008-04-28 23:29:25 as ** along with 2 people and 2 groups aconesa cmzmasek Microbial-Ecology Papers recommended by the Roscoff Plankton Group
  • Application of Combined Morphological-Molecular Approaches to the Identification of Planktonic Protists from Environmental Samples
    The Journal of Eukaryotic Microbiology, Vol. 0, No. ja. (0)
    by Joel R Duff, BALL Hope, Peter J Lavrentyev
    posted to phylogeny plankton protist taxonomy by vaulot on 2008-05-13 02:07:50 as *** along with 2 groups Microbial-Ecology Papers recommended by the Roscoff Plankton Group
  • A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
    Systematic Biology, Vol. 52, No. 5. (2003), pp. 696-704.
    by Stéphane Guindon, Olivier Gascuel
    posted to bioinformatics phylogeny by urgi on 2007-12-04 15:42:29 as ** along with 1 person timflutre
  • The new higher level classification of eukaryotes with emphasis on the taxonomy of protists.
    J Eukaryot Microbiol, Vol. 52, No. 5. (t 2005), pp. 399-451.
    by SM Adl, AG Simpson, MA Farmer, RA Andersen, OR Anderson, JR Barta, SS Bowser, G Brugerolle, RA Fensome, S Fredericq, TY James, S Karpov, P Kugrens, J Krug, CE Lane, LA Lewis, J Lodge, DH Lynn, DG Mann, RM McCourt, L Mendoza, O Moestrup, SE Mozley-Standridge, TA Nerad, CA Shearer, AV Smirnov, FW Spiegel, MF Taylor
    posted to phylogeny by tny on 2008-07-11 10:01:58 as ** along with 4 people and 1 group jmeppley jdelcampo Fabnot cmzmasek Microbial-Ecology
  • Evolutionary Genomics of the HAD Superfamily: Understanding the Structural Adaptations and Catalytic Diversity in a Superfamily of Phosphoesterases and Allied Enzymes
    Journal of Molecular Biology, Vol. 361, No. 5. (1 September 2006), pp. 1003-1034.
    by Maxwell A Burroughs, Karen N Allen, Debra Dunaway-Mariano, L Aravind
    posted to catalytic_site enzyme had phylogeny by tny on 2006-08-14 12:08:18 as ** along with 1 person christiw
  • MANET: tracing evolution of protein architecture in metabolic networks
    BMC Bioinformatics, Vol. 7 (19 July 2006), 351.
    by Hee S Kim, Jay E Mittenthal, Gustavo Caetano-Anolles
    posted to database_issue enzyme phylogeny by tny on 2007-07-02 11:17:24 as ** along with 2 people kuhn balajis
  • Relation between domain evolution, specificity, and taxonomy of the alpha-amylase family members containing a C-terminal starch-binding domain
    Eur J Biochem, Vol. 270, No. 4. (15 February 2003), pp. 635-645.
    by Stefan Janecek, Birte Svensson, Ann E Macgregor
    posted to taxonomy phylogeny enzyme amylase by tny on 2007-01-23 01:08:12 as **
  • Of clades and clans: terms for phylogenetic relationships in unrooted trees
    Trends in Ecology & Evolution, Vol. 22, No. 3. (March 2007), pp. 114-115.
    by Mark Wilkinson, James O Mcinerney, Robert P Hirt, Peter G Foster, Martin T Embley
    posted to phylogeny review by tny on 2008-07-11 03:26:51 as ** along with 4 people and 2 groups dchughes echinotrix agg19954 TaqSys G4ID Genetics-of-Gambling
  • Evolutionary Origins of Genomic Repertoires in Bacteria.
    PLoS Biol, Vol. 3, No. 5. (5 April 2005)
    by Emmanuelle Lerat, Vincent Daubin, Howard Ochman, Nancy A A Moran
    posted to bacteria phylogeny by tny on 2006-08-03 18:53:46 as ** along with 5 people and 1 group operon jwortman treangen manzanita kinestetika microbiology_nijmegen
  • Refuting phylogenetic relationships
    Biology Direct, Vol. 1 (06 September 2006), 26.
    by James Bucknam, Yan Boucher, Eric Bapteste
    posted to archaea bacteria pca phylogeny by tny on 2006-09-06 17:31:08 as ** along with 1 person aprasad
  • Which chick is tasty to parasites? The importance of host immunology vs. parasite life history
    Journal of Animal Ecology, Vol. 72, No. 1. (2003), pp. 75-81.
    by Alexandre Roulin, Martin W Brinkhof, Pierre Bize, Heinz Richner, Thomas W Jungi, Christian Bavoux, Nicolas Boileau, Guy Burneleau
    posted to history immunology parasitology phylogeny specialists traits by timothee on 2007-01-02 13:24:05 as **
  • Phylogenies, the comparative method and parasite evolutionary ecology.
    Adv Parasitol, Vol. 54 (2003), pp. 281-302.
    by S Morand, R Poulin
    posted to ecology evolution phylogeny theory by timothee on 2007-01-02 00:56:49 as *** along with 1 person and 1 group rvosa FAB-lab
  • Parasite species coexistence and limiting similarity: a multiscale look at phylogenetic, functional and reproductive distances.
    Oecologia, Vol. 146, No. 2. (December 2005), pp. 269-278.
    by D Mouillot, A Simková, S Morand, R Poulin
    posted to coexistence parasitology phylogeny by timothee on 2007-01-01 11:23:13 as **
  • Phylogenetic relationships and evolution of cleaning behaviour in the family Labridae: importance of body colour pattern
    Journal of Evolutionary Biology, Vol. 19, No. 3. (May 2006), pp. 755-763.
    by C Arnal, O Verneau, Y Desdevises
    posted to behavior cooperation evolution fishes labridae parasitology phylogeny by timothee on 2007-01-01 11:32:09 as read
  • Co-existence of nine gill ectoparasites (Dactylogyrus: monogenea) parasitising the roach (Rutilus rutilus l.): history and present ecology.
    Int J Parasitol, Vol. 30, No. 10. (September 2000), pp. 1077-1088.
    by A Simková, Y Desdevises, M Gelnar, S Morand
    posted to dactylogyrus ecology ectoparasites evolution fishes history internship monogeneans parasitology phylogeny by timothee on 2007-01-01 11:30:08 as **
  • Bushes in the Tree of Life
    PLoS Biology, Vol. 4, No. 11. (1 November 2006), e352.
    by Antonis Rokas, Sean B Carroll
    posted to bushes evolution homoplasy phylogenomics phylogeny by timothee on 2007-01-01 14:34:17 as read along with 2 people and 4 groups emilyhare kehan biodiversity_conservation Bioinformatics EisenLab GrassBase
  • Investigating patterns may reveal processes: evolutionary ecology of ectoparasitic monogeneans.
    Int J Parasitol, Vol. 32, No. 2. (February 2002), pp. 111-119.
    by S Morand, A Simková, I Matejusová, L Plaisance, O Verneau, Y Desdevises
    posted to ectoparasites evolution fishes internship monogeneans parasitology phylogeny by timothee on 2007-01-01 11:27:01 as read
  • Molecular phylogeny of congeneric monogenean parasites (Dactylogyrus): a case of intrahost speciation.
    Evolution Int J Org Evolution, Vol. 58, No. 5. (May 2004), pp. 1001-1018.
    by A Simková, S Morand, E Jobet, M Gelnar, O Verneau
    posted to congeneric dactylogyrus evolution internship monogeneans parasitology phylogeny specialization by timothee on 2007-01-01 11:26:10 as ***
  • Phylogenomics of the nucleosome.
    Nat Struct Biol, Vol. 10, No. 11. (November 2003), pp. 882-891.
    by HS Malik, S Henikoff
    posted to nucleosome phylogeny by timflutre on 2008-03-27 23:24:38 as **
  • notes Estimating the pattern of nucleotide substitution
    Journal of Molecular Evolution, Vol. 39, No. 1. (1 July 1994), pp. 105-111.
    by Ziheng Yang
    posted to molec_evo phylogeny by timflutre on 2008-06-12 18:44:17 as ** along with 1 person CharlesM
  • notes Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites.
    Mol Biol Evol, Vol. 10, No. 6. (November 1993), pp. 1396-1401.
    by Z Yang
    posted to molec_evo phylogeny stats by timflutre on 2008-06-12 19:08:28 as ** along with 1 person bpb
    • 注: このページを引用する時は次のURLでどうぞ: http://www.citeulike.org/tag/phylogeny

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