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Group: FAB-lab - with tag substitution-models [61 articles]

グループ FAB-lab のメンバーが最近追加した論文の一覧 with tag substitution-models
  • Mixture models in phylogenetic inference
    (28 April 2008)
    by Mark Pagel
    posted to bayesian markov-chains methods monte-carlo phylogeny rates substitution-models by rvosa to the group FAB-lab on 2008-08-18 02:27:00 as **
  • Modelling Heterotachy in Phylogenetic Inference by Reversible-Jump Markov chain Monte Carlo
    Philosophical Transactions of the Royal Society of London Series B: Biological Sciences, Vol. In review
    by Mark Pagel, Andrew Meade
    posted to bayesian markov-chains methods monte-carlo rates substitution-models by rvosa to the group FAB-lab on 2008-08-18 01:50:23 as **
  • Datamonkey: rapid detection of selective pressure on individual sites of codon alignments
    Bioinformatics, Vol. 21, No. 10. (15 May 2005), pp. 2531-2533.
    by Sergei LK Pond, Simon D Frost
    posted to data-mining selection sequence-evolution software substitution-models by rvosa to the group FAB-lab on 2008-08-14 00:43:38 as ** along with 2 people druvus BioNica
  • Genomic data support the hominoid slowdown and an Early Oligocene estimate for the hominoid–cercopithecoid divergence
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 49. (7 December 2004), pp. 17021-17026.
    by Michael E Steiper, Nathan M Young, Tika Y Sukarna
    posted to animals cercopithecidae cercopithecinae clock-like dna fossils hominidae mammals primates rates substitution-models by rvosa to the group FAB-lab on 2008-08-12 07:49:38 as **
  • Forces Shaping the Fastest Evolving Regions in the Human Genome
    PLoS Genetics, Vol. 2, No. 10. (1 October 2006), e168.
    by Katherine S Pollard, Sofie R Salama, Bryan King, Andrew D Kern, Tim Dreszer, Sol Katzman, Adam Siepel, Jakob S Pedersen, Gill Bejerano, Robert Baertsch, Kate R Rosenbloom, Jim Kent, David Haussler
    posted to animals divergence dna evolution genome hominidae humans mammals rates substitution-models by rvosa to the group FAB-lab on 2008-08-12 04:13:38 as ** along with 2 people and 1 group nickluscombe iris42 EBI-regulation
  • Frequent False Detection of Positive Selection by the Likelihood Method with Branch-Site Models
    Mol Biol Evol, Vol. 21, No. 7. (1 July 2004), pp. 1332-1339.
    by Jianzhi Zhang
    posted to genetics likelihood methods selection sequence-evolution substitution-models by rvosa to the group FAB-lab on 2008-08-12 04:02:24 as ** along with 1 person Garamonfok
  • Molecular evolution of human visual pigment genes.
    Molecular biology and evolution, Vol. 6, No. 2. (March 1989), pp. 186-197.
    by S Yokoyama, R Yokoyama
    posted to evolution humans sequence-evolution substitution-models vision by rvosa to the group FAB-lab on 2008-08-10 08:06:00 as **
  • Is the population size of a species relevant to its evolution?
    Evolution Int J Org Evolution, Vol. 55, No. 11. (11 November 2001), pp. 2161-2169.
    by JH Gillespie
    posted to population-genetics rates selection substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:56:15 as ** along with 3 people aprasad jmeppley bpcusack
  • Metabolic rate does not calibrate the molecular clock.
    Proc Natl Acad Sci U S A, Vol. 104, No. 39. (25 September 2007), pp. 15388-15393.
    by R Lanfear, JA Thomas, JJ Welch, T Brey, L Bromham
    posted to clock-like comparative morphometrics rates substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:48:24 as ** along with 3 people and 1 group kinestetika Katje Borelli microbiology_nijmegen
  • Calculating independent contrasts for the comparative study of substitution rates.
    Journal of theoretical biology, Vol. 251, No. 4. (21 April 2008), pp. 667-678.
    by JJ Welch, D Waxman
    posted to comparative contrasts likelihood methods rates substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:42:43 as **
  • Strong Variations of Mitochondrial Mutation Rate across Mammals--the Longevity Hypothesis
    Mol Biol Evol, Vol. 25, No. 1. (1 January 2008), pp. 120-130.
    by Benoit Nabholz, Sylvain Glemin, Nicolas Galtier
    posted to animals clock-like comparative life-history mammals mitochondrial nuclear population-genetics rates substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:35:08 as ** along with 4 people aprasad renatomilani smbe2008 stevanspringer
  • The rate of DNA evolution: effects of body size and temperature on the molecular clock.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 1. (4 January 2005), pp. 140-145.
    by JF Gillooly, AP Allen, GB West, JH Brown
    posted to clock-like comparative genome mitochondrial morphometrics nuclear rates substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:12:36 as **
  • Lineage-specific evolutionary rate in mammalian mtDNA.
    Molecular biology and evolution, Vol. 17, No. 7. (July 2000), pp. 1022-1031.
    by C Gissi, A Reyes, G Pesole, C Saccone
    posted to animals comparative genome mammals mitochondrial morphometrics rates substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:10:34 as **
  • Partitioning the variation in mammalian substitution rates.
    Mol Biol Evol, Vol. 20, No. 1. (January 2003), pp. 10-17.
    by NG Smith, A Eyre-Walker
    posted to animals mammals mitochondrial nuclear rates sequence-evolution substitution-models by rvosa to the group FAB-lab on 2008-08-09 21:07:32 as ** along with 1 person mdimmic
  • Correlates of substitution rate variation in mammalian protein-coding sequences
    BMC Evolutionary Biology, Vol. 8 (19 February 2008), 53.
    by John J Welch, Olaf RP Bininda-Emonds, Lindell Bromham
    posted to animals clock-like comparative divergence life-history mammals rates substitution-models by rvosa to the group FAB-lab on 2008-08-09 20:49:44 as **
  • Large punctuational contribution of speciation to evolutionary divergence at the molecular level.
    Science, Vol. 314, No. 5796. (6 October 2006), pp. 119-121.
    by M Pagel, C Venditti, A Meade
    posted to clock-like divergence dna evolution phylogeny rates speciation substitution-models by rvosa to the group FAB-lab on 2008-08-09 11:44:51 as ** along with 4 people and 1 group knaseanka brant bpcusack shikin EisenLab
  • 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 inference methods models phylogeny sequence-evolution substitution-models by rvosa to the group FAB-lab on 2008-08-09 10:43:23 as ** along with 1 person aprasad
  • A Phylogenetic Mixture Model for Detecting Pattern-Heterogeneity in Gene Sequence or Character-State Data
    Systematic Biology, Vol. 53, No. 4., 571.
    by Mark Pagel, Andrew Meade
    posted to characters genetics methods models phylogeny sequence substitution-models by rvosa to the group FAB-lab on 2008-08-09 10:21:04 as ** along with 1 person taka
  • An evaluation of the molecular clock hypothesis using mammalian DNA sequences
    Journal of Molecular Evolution, Vol. 25, No. 4. (1987), pp. 330-342.
    by Wen-Hsiung Li, Masako Tanimura, Paul Sharp
    posted to alignment animals dna evolution genetics primates rodents sequence-evolution substitution-models by rvosa to the group FAB-lab on 2008-08-09 05:56:41 as **
  • Accelerated molecular evolution as a consequence of transitions to mutualism
    Proceedings of the national academy of sciences, Vol. 94, No. 21. (1997), pp. 11422-11427.
    by Francois Lutzoni, Mark Pagel
    posted to bacteria comparative divergence fungi methods rates ratio-test substitution-models by rvosa to the group FAB-lab on 2008-07-11 18:54:57 as **
  • notes Estimating Evolutionary Rates in the Primate epsilon-globin Pseudogene
    (12 August 2004)
    by Toby Johnson
    posted to animals mammals primates rates software substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-08 03:13:21 as **
  • notes Molecular evolutionary dynamics of cytochrome b in Strepsirrhine primates: the phylogenetic significance of third-position transversions
    Molecular Biology and Evolution, Vol. 13 (1996), pp. 1339-1350.
    by AD Yoder, R Vilgalys, Maryellen Ruvolo
    posted to animals bibtex-import mammals mitochondrial primates sequence-evolution strepsirrhines substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as **
  • Comparison of likelihood and Bayesian methods for estimating divergence times using multiple gene loci and calibration points, with application to a radiation of cute-looking mouse lemur species
    Systematic Biology, Vol. 52, No. 5. (2003), pp. 705-716.
    by ZH Yang, AD Yoder
    posted to animals bayesian bibtex-import clock-like divergence lemuridae likelihood mammals markov-chains monte-carlo morphology primates rates substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as **
  • notes Estimation of the Transition/Transversion Rate Bias and Species Sampling
    Journal of Molecular Evolution, Vol. 48 (1999), pp. 274-283.
    by Ziheng Yang, AD Yoder
    posted to animals bibtex-import likelihood mammals primates source-trees substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as ** along with 1 person pradiptaray
  • notes Bayesian Phylogenetic Inference Using DNA Sequences: A Markov Chain Monte Carlo Method
    Molecular Biology and Evolution, Vol. 14, No. 7. (1997), pp. 717-724.
    by Ziheng Yang, Bruce Rannala
    posted to bayesian bibtex-import diversification extinction markov-chains monte-carlo phylogeny speciation substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as **
  • notes Likelihood Ratio Tests for Detecting Positive Selection and Application to Primate Lysozyme Evolution
    Molecular Biology and Evolution, Vol. 15, No. 5. (1998), pp. 568-573.
    by Ziheng Yang
    posted to animals bibtex-import likelihood mammals primates protein ratio-test selection substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as **
  • PAML: a program package for phylogenetic analysis by maximum likelihood
    CABIOS, Vol. 13 (1997), pp. 555-556.
    by Ziheng Yang
    posted to bibtex-import likelihood software substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as **
  • notes Molecular Evolution of Cytochrome c Oxidase Subunit I in Primates: Is There Coevolution between Mitochondrial and Nuclear Genomes?
    Molecular Phylogenetics and Evolution, Vol. 17, No. 2. (2000), pp. 294-304.
    by Wei Wu, TR Schmidt, M Goodman, Lawrence I Grossman
    posted to animals bibtex-import dna genome mammals mitochondrial nuclear phylogenomics primates source-trees substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as **
  • notes Molecular Evolution of Cytochrome c Oxidase Subunit IV: Evidence for Positive Selection in Simian Primates
    Journal of Molecular Evolution, Vol. 44 (1997), pp. 477-491.
    by Wei Wu, M Goodman, Margaret I Lomax, Lawrence I Grossman
    posted to animals bibtex-import dna mammals mitochondrial primates rates selection source-trees substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as **
  • Comparison between phylogeny of introns and exons in primates
    Chinese Science Bulletin, Vol. 44, No. 21. (1999), pp. 1940-1946.
    by N Wang, R Chen
    posted to animals bibtex-import evolution inference mammals phylogeny primates sequence-evolution substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:29 as **
  • notes Inching toward Reality: An Improved Likelihood Model of Sequence Evolution
    Journal of Molecular Evolution, Vol. 34 (1992), pp. 3-16.
    by Jeffrey L Thorne, Hirohisa Kishino, Joseph Felsenstein
    posted to algorithms alignment bibtex-import evolution likelihood methods programming substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:28 as **
  • notes Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
    Molecular Biology and Evolution, Vol. 10 (1993), pp. 512-526.
    by K Tamura, M Nei
    posted to animals bibtex-import hominidae mammals mitochondrial primates sequence-evolution substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:28 as **
  • notes Molecular Phylogeny of the New World Monkeys (Platyrrhini, Primates) Based on Two Unlinked Nuclear Genes: IRBP Intron 1 and e-Globin Sequences
    American Journal of Physical Anthropology, Vol. 100 (1996), pp. 153-179.
    by Horacio Schneider, Iracilda Sampaio, ML Harada, CML Barroso, Maria, John Czelusniak, M Goodman
    posted to animals bibtex-import cebidae evolution genetics mammals parsimony primates sequence-evolution source-trees substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:25 as **
  • Evolutionary rates of insertion and deletion in noncoding nucleotide sequences of Primates
    Molecular Biology and Evolution, Vol. 11, No. 3. (1994), pp. 504-512.
    by N Saitou, S Ueda
    posted to animals bibtex-import mammals primates rates sequence-evolution substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:24 as **
  • notes Estimating divergence dates from molecular sequences
    Molecular Biology and Evolution, Vol. 15, No. 4. (1998), pp. 442-448.
    by A Rambaut, L Bromham
    posted to animals bibtex-import birds clock-like divergence dna evolution fossils likelihood mammals methods mitochondrial phylogeny rates sequence substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:22 as **
  • Sampling strategies for delimiting species: Genes, individuals, and populations in the Liolaemus elongatus-kriegi complex (Squamata : Liolaemidae) in Andean-Patagonian South America
    Systematic Biology, Vol. 52, No. 2. (2003), pp. 159-185.
    by M Morando, LJ Avila, JW Sites
    posted to animals bibtex-import biodiversity biogeography data-mining evolution lizards methods phyloinformatics population population-genetics regions speciation substitution-models taxonomy vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:18 as **
  • Performance-based selection of likelihood models for phylogeny estimation
    Systematic Biology, Vol. 52, No. 5. (2003), pp. 674-683.
    by V Minin, Z Abdo, P Joyce, J Sullivan
    posted to bayesian bibtex-import likelihood phylogeny ratio-test substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:17 as **
  • notes Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation
    BMC Evolutionary Biology, Vol. 5, No. 8. (2005)
    by Jessica C Mar, Timothy J Harlow, Mark A Ragan
    posted to bayesian bibtex-import likelihood phylogeny protein substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:16 as **
  • Out of Africa: molecular phylogenetics and biogeography of Wolffiella (Lemnaceae)
    Biological Journal of the Linnean Society, Vol. 79, No. 4. (2003), pp. 565-576.
    by RT Kimball, DJ Crawford, DH Les, E Landolt
    posted to bibtex-import biogeography classification data-mining morphology plants substitution-models taxonomy by rvosa to the group FAB-lab on 2008-02-06 23:58:15 as **
  • Molecular systematics and adaptive radiation of Hawaii's endemic damselfly genus Megalagrion (Odonata : Coenagrionidae)
    Systematic Biology, Vol. 52, No. 1. (2003), pp. 89-109.
    by S Jordan, C Simon, D Polhemus
    posted to adaptation animals bayesian bibtex-import insects invertebrates likelihood mitochondrial nuclear phylogeny radiation ratio-test speciation substitution-models topology by rvosa to the group FAB-lab on 2008-02-06 23:58:14 as **
  • When do parasites fail to speciate in response to host speciation?
    Systematic Biology, Vol. 52, No. 1. (2003), pp. 37-47.
    by KP Johnson, RJ Adams, RDM Page, DH Clayton
    posted to animals bibtex-import birds dna insects invertebrates mitochondrial nuclear parasitism phylogeny population-genetics rates speciation substitution-models topology vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:14 as **
  • Outgroup misplacement and phylogenetic inaccuracy under a molecular clock - A simulation study
    Systematic Biology, Vol. 52, No. 2. (2003), pp. 229-238.
    by BR Holland, D Penny, MD Hendy
    posted to bibtex-import clock-like likelihood parsimony phenetics simulation substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:12 as **
  • notes Success of Maximum Likelihood Phylogeny Inference in the Four-Taxon Case
    Molecular Biology and Evolution, Vol. 12, No. 1. (1995), pp. 152-162.
    by Brandon S Gaut, Paul O Lewis
    posted to bibtex-import likelihood phylogeny ratio-test substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:08 as **
  • notes Inferring Pattern and Process: Maximum-Likelihood Implementation of a Nonhomogeneous Model of DNA Sequence Evolution for Phylogenetic Analysis
    Molecular Biology and Evolution, Vol. 15, No. 7. (1998), pp. 871-879.
    by Nicolas Galtier, Manolo Gouy
    posted to bibtex-import genetics likelihood phylogeny sequence-evolution substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:08 as **
  • Reliability of Bayesian posterior probabilities and bootstrap frequencies in phylogenetics
    Systematic Biology, Vol. 52, No. 5. (2003), pp. 665-673.
    by P Erixon, B Svennblad, T Britton, B Oxelman
    posted to bayesian bibtex-import likelihood markov-chains methods monte-carlo simulation substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as **
  • Insulin-like growth factor II intron sequences support the hominoid rate-slowdown hypothesis
    Molecular Phylogenetics and Evolution, Vol. 2, No. 315-321. (1993)
    by DL Ellsworth, Hewett D Emmett, WH Li
    posted to animals bibtex-import dna genetics hominidae humans mammals nuclear primates rates substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as **
  • notes Molecular Evidence from the Nuclear Genome for the Time Frame of Human Evolution
    Journal of Molecular Evolution, Vol. 44(Suppl 1) (1997), pp. S121-S132.
    by S Easteal, G Herbert
    posted to animals bibtex-import clock-like evolution hominidae humans mammals primates rates sequence substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as **
  • notes Hominoid phylogeny estimated by model selection using goodness of fit significance tests
    Molecular Phylogenetics and Evolution, Vol. 4 (1995), pp. 283-290.
    by John Czelusniak, M Goodman
    posted to animals bibtex-import mammals models primates source-trees substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:06 as **
  • Rates of transition and transversion in coding sequences since the human-rodent divergence
    Genomics, Vol. 20 (1994), pp. 386-396.
    by DW Collins, TH Jukes
    posted to animals bibtex-import mammals primates rates rodents substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:05 as **
  • notes Accelerated Evolution of Cytochrome b in Simian Primates: Adaptive Evolution in Concert with Other Mitochondrial Proteins?
    Journal of Molecular Evolution, Vol. 47 (1998), pp. 249-257.
    by TD Andrews, LS Jermiin, S Easteal
    posted to adaptation animals bibtex-import dna genetics mammals mitochondrial primates rates source-trees substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:02 as **
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