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stevanspringers bevakningslista [1000+ articles]

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  • More genes underwent positive selection in chimpanzee evolution than in human evolution.
    Proc Natl Acad Sci U S A, Vol. 104, No. 18. (1 May 2007), pp. 7489-7494.
    by MA Bakewell, P Shi, J Zhang
    posted to animals genome hominidae humans primates selection by rvosa to the group FAB-lab on 2008-08-30 00:24:04 as ** along with 4 people bpb usagi-kirin pradiptaray Garamonfok
  • Initial sequence of the chimpanzee genome and comparison with the human genome
    Nature, Vol. 437, No. 7055., pp. 69-87.
    by The
    posted to animals comparative genome hominidae primates by rvosa to the group FAB-lab on 2008-08-30 00:20:10 as ** along with 10 people and 2 groups cannin chrn aprasad great_apes indigoviolet dullhunk djkt JeffR100 Garamonfok iris42 biodiversity_conservation EisenLab
  • 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 **
  • Comparative analysis by independent contrasts (CAIC): an Apple Macintosh application for analysing comparative data.
    Computer Appl. Biosciences, Vol. 11 (1999), pp. 247-251.
    by Andy Purvis, Andrew Rambaut
    posted to comparative methods software by rvosa to the group FAB-lab on 2008-08-14 03:02:20 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 1 person BioNica
  • Immune system evolution among anthropoid primates: parasites, injuries and predators.
    Proceedings. Biological sciences / The Royal Society, Vol. 269, No. 1495. (22 May 2002), pp. 1031-1037.
    by S Semple, G Cowlishaw, PM Bennett
    posted to adaptation animals comparative ecology evolution mammals parasitism predation primates protein proteins sexual by rvosa to the group FAB-lab on 2008-08-13 22:43:09 as **
  • Promiscuity and the Primate Immune System
    Science, Vol. 290, No. 5494. (10 November 2000), pp. 1168-1170.
    by Charles L Nunn, John L Gittleman, Janis Antonovics
    posted to adaptation animals behaviour comparative mammals primates by rvosa to the group FAB-lab on 2008-08-13 22:16:56 as **
  • The Tree of Life Web Project
    Zootaxa, No. 1668. (2007), pp. 19-40.
    by David R Maddison, Katja-Sabine Schulz, Wayne P Maddison
    posted to biodiversity databases data-mining evolution phylogeny phyloinformatics taxonomy by rvosa to the group FAB-lab on 2008-08-13 01:07:30 as **
  • Detecting lineage-specific adaptive evolution of brain-expressed genes in human using rhesus macaque as outgroup
    Genomics, Vol. 88, No. 6. (December 2006), pp. 745-751.
    by Xiao-Jing Yu, Hong-Kun Zheng, Jun Wang, Wen Wang, Bing Su
    posted to adaptation alignment amino-acid animals anthropology clock-like comparative data-mining divergence dna encephalization evolution genetics genome hominidae humans mammals models phylogenomics primates protein proteins proteomics rates ratio-test selection sequence-evolution by rvosa to the group FAB-lab on 2008-08-12 08:00:48 as **
  • Use and misuse of the gene ontology annotations.
    Nature reviews. Genetics (13 May 2008)
    by Seung Yon Rhee, Valerie Wood, Kara Dolinski, Sorin Draghici
    posted to genetics genome methods ontology programming by rvosa to the group FAB-lab on 2008-08-12 07:52:51 as ** along with 20 people and 1 group djkt jyuh aheilbut mariakmejia cmzmasek A_Olympia realzhang carlk roys gjuggler fpattyn RamuAnandakrishnan ptrobajo giovenko cabbagesofdoom tmmurali renatomilani capitall marck bpcusack logics of knowledge
  • 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 **
  • Cases in which Parsimony or Compatibility Methods Will be Positively Misleading
    Systematic Zoology, Vol. 27, No. 4. (1978), pp. 401-410.
    by Joseph Felsenstein
    posted to characters inference methods parsimony phylogeny by rvosa to the group FAB-lab on 2008-08-12 05:17:15 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
  • Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.
    Nat Genet, Vol. 25, No. 1. (May 2000), pp. 25-29.
    by M Ashburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel-Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock
    posted to databases data-mining genetics genome ontology protein proteins proteomics by rvosa to the group FAB-lab on 2008-08-11 08:24:25 as ** along with 34 people and 5 groups aalibes miguel dragonrez lfriedl chad_davis yas balajis indigoviolet benny dullhunk nirfriedman fisherp caporaso helliontroy zlu gurkanbebek djkt massivemayhem incovoma leechuck aconesa sgoetz javamint bootsy PunkRock natstreet naegele CitoJam pablomendes carlk marck dgront roys fongenae kdl Bioinformatics EisenLab T_lab biomedical-nlp
  • The Ensembl genome database project
    Nucl. Acids Res., Vol. 30, No. 1. (1 January 2002), pp. 38-41.
    by T Hubbard, D Barker, E Birney, G Cameron, Y Chen, L Clark, T Cox, J Cuff, V Curwen, T Down, R Durbin, E Eyras, J Gilbert, M Hammond, L Huminiecki, A Kasprzyk, H Lehvaslaiho, P Lijnzaad, C Melsopp, E Mongin, R Pettett, M Pocock, S Potter, A Rust, E Schmidt, S Searle, G Slater, J Smith, W Spooner, A Stabenau, J Stalker, E Stupka, A Ureta-Vidal, I Vastrik, M Clamp
    posted to databases data-mining genome programming software by rvosa to the group FAB-lab on 2008-08-11 07:15:41 as ** along with 4 people incovoma kynn raylim CitoJam
  • Genetic variation in mRNA coding sequences of highly conserved genes
    Physiol. Genomics, Vol. 5, No. 3. (2 April 2001), pp. 113-118.
    by Ten, Jeffrey Olsen, David Housman, Frank Baas, Vince Stanton
    posted to data-mining dna genetics hominidae humans nuclear primates protein proteins sequence-evolution variability by rvosa to the group FAB-lab on 2008-08-11 03:27:36 as **
  • Positive selection, relaxation, and acceleration in the evolution of the human and chimp genome.
    PLoS Comput Biol, Vol. 2, No. 4. (April 2006)
    by L Arbiza, J Dopazo, H Dopazo
    posted to adaptation animals clock-like comparative data-mining divergence dna genetics genome hominidae humans mammals nuclear ontology phylogenomics primates protein proteins rates ratio-test selection sequence-evolution by rvosa to the group FAB-lab on 2008-08-11 03:11:43 as ** along with 5 people and 2 groups operon marcius jordibc hdopazo Garamonfok BioinfoCIPF SGU-CIPF
  • Molecular evolution of FOXP2, a gene involved in speech and language
    Nature, Vol. 418, No. 6900. (2002), pp. 869-872.
    by Wolfgang Enard, Molly Przeworski, Simon E Fisher, Cecilia S Lai, Victor Wiebe, Takashi Kitano, Anthony P Monaco, Svante Paabo
    posted to animals genetics hominidae humans mammals primates rates rodents selection sequence sequence-evolution by rvosa to the group FAB-lab on 2008-08-10 09:57:48 as ** along with 1 person djkt
  • 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 **
  • Aging: a theory based on free radical and radiation chemistry
    Journal of Gerontology, Vol. 2 (1957), pp. 298-300.
    by D Harman
    posted to life-history mitochondrial by rvosa to the group FAB-lab on 2008-08-10 00:33:52 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 **
  • 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
  • Constrained models of evolution lead to improved prediction of functional linkage from correlated gain and loss of genes
    Bioinformatics, Vol. 23, No. 1. (1 January 2007), pp. 14-20.
    by Barker, Daniel, Meade, Andrew, Pagel, Mark
    posted to comparative genetics models networks phylogenomics by rvosa to the group FAB-lab on 2008-08-09 09:49:47 as **
  • Bayesian Analysis of Correlated Evolution of Discrete Characters by Reversible-Jump Markov Chain Monte Carlo.
    The American naturalist, Vol. 167, No. 6. (9 May 2006)
    by Mark Pagel, Andrew Meade
    posted to bayesian characters comparative evolution markov-chains methods monte-carlo statistics by rvosa to the group FAB-lab on 2008-08-09 09:41:27 as **
  • Assembly rules for protein networks derived from phylogenetic-statistical analysis of whole genomes
    BMC Evolutionary Biology, Vol. 7, No. Suppl 1. (2007)
    by Mark Pagel, Andrew Meade, Daniel Scott
    posted to genome networks phylogenomics phylogeny protein statistics by rvosa to the group FAB-lab on 2008-08-09 09:25:02 as **
  • Rates of DNA sequence evolution differ between taxonomic groups
    Science, Vol. 231, No. 4744. (21 March 1986), pp. 1393-1398.
    by RJ Britten
    posted to animals clock-like divergence dna humans mammals primates rates sequence-evolution by rvosa to the group FAB-lab on 2008-08-09 07:28:06 as **
  • A Complete Neandertal Mitochondrial Genome Sequence Determined by High-Throughput Sequencing
    Cell, Vol. 134 (2008), pp. 416-426.
    by Richard E Green, Anna-Sapfo Malaspinas, Johannes Krause, Adrian W Briggs, Philip LF Johnson, Caroline Uhler, Matthias Meyer, Jeffrey M Good, Tomislav Maricic, Udo Stenzel, Kay Prüfer, Michael Siebauer, Hernán A Burbano, Michael Ronan, Jonathan M Rothberg, Michael Egholm, Pavao Rudan, Dejana Brajković, Željko Kućan, Ivan Gušić, Mårten Wikström, Liisa Laakkonen, Janet Kelso, Montgomery Slatkin, Svante Pääbo
    posted to animals anthropology dna genome hominidae humans mammals mitochondrial population-genetics primates sequence sequence-evolution by rvosa to the group FAB-lab on 2008-08-09 06:50:33 as **
  • 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 **
  • BranchClust: A phylogenetic algorithm for selecting gene families
    BMC Bioinformatics, Vol. 8 (10 April 2007), 120.
    by Maria S Poptsova, Peter J Gogarten
    posted to algorithms alignment data-mining genome homology methods phylogenomics phyloinformatics programming by rvosa to the group FAB-lab on 2008-08-08 07:02:46 as ** along with 1 person and 1 group stajich Berkeley Mycology
  • 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 **
  • Understanding the Metropolis-Hastings Algorithm
    The American Statistician, Vol. 49, No. 4. (1995), pp. 327-335.
    by Siddhartha Chib, Edward Greenberg
    posted to algorithms bayesian markov-chains methods monte-carlo statistics by rvosa to the group FAB-lab on 2008-05-13 01:30:09 as ** along with 11 people and 1 group ldietz pcarbo icosma adriandefroment leonnovelo i-stevenson jrw quianominorleo ansobol markusd nojhan Metaheuristics
  • What is principal component analysis?
    Nature Biotechnology, Vol. 26, No. 3., pp. 303-304.
    by Markus Ringnér
    posted to data-mining methods statistics by rvosa to the group FAB-lab on 2008-05-13 01:28:59 as ** along with 54 people and 2 groups Yanno jyuh operon barry baaic dullhunk Bevan_Weir zeji gareth massivemayhem zwang GustavoLacerda GeeSharpMinor bmaust zambujo mingzhi starz1010101 maralena wchannels sunhwan jennifermbui kdelavega zhouyu rsantana laharrin sobolevnrm fryanpan kengg dekay23 adacier hpaces waghsk rchauhan pavanghatty kristgy jfr bibay2004 xingxu quianominorleo abbie_riner craigwilson06 ashko markusd dayjm dimka i-stevenson chrissp100 tharris ale mjoach HugoMarcelo jdiezperezj rrbarb Nici baker-group Bioinformatics
  • Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA).
    Omics : a journal of integrative biology, Vol. 10, No. 2. (2006), pp. 231-237.
    by J Leebens-Mack, T Vision, E Brenner, JE Bowers, S Cannon, MJ Clement, CW Cunningham, C dePamphilis, R deSalle, JJ Doyle, JA Eisen, X Gu, J Harshman, RK Jansen, EA Kellogg, EV Koonin, BD Mishler, H Philippe, JC Pires, YL Qiu, SY Rhee, K Sjölander, DE Soltis, PS Soltis, DW Stevenson, K Wall, T Warnow, C Zmasek
    posted to methods by rvosa to the group FAB-lab on 2008-04-22 20:26:55 as read along with 1 person jandot
  • 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 Evolutionary divergence and convergence in proteins
    (1965), pp. 97-165.
    by E Zuckercandl, L Pauling
    edited by V Bryson, HJ Vogel
    posted to amino-acid bibtex-import clock-like divergence evolution protein rates by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as ** along with 1 person balicea
  • Myxozoa, Polypodium, and the origin of the Bilateria: the phylogenetic position of Endocnidozoa in light of the rediscovery of Buddenbrockia
    Cladistics-the International Journal of the Willi Hennig Society, Vol. 19, No. 2. (2003), pp. 164-169.
    by J Zrzavy, V Hypsa
    posted to animals bibtex-import classification phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as **
  • notes The debate over species concepts and its implications for ornithology
    The Auk, Vol. 112, No. 3. (1995), pp. 701-719.
    by RM Zink, MC Mckitrick
    posted to animals bibtex-import birds classification speciation taxonomy vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as ** along with 1 person pradiptaray
  • notes Monophyletic Origin of Alu Elements in Primates
    Journal of Molecular Evolution, Vol. 47 (1998), pp. 172-182.
    by Ewa Zietkiewicz, Chantal Richer, Daniel Sinnett, Damian Labuda
    posted to animals bibtex-import mammals phylogenomics primates rna sequence-evolution sine vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as **
  • notes Phylogenetic affinities of tarsier in the context of primate Alu repeats
    Molecular Phylogenetics and Evolution, Vol. 11 (1999), pp. 77-83.
    by Ewa Zietkiewicz, Chantal Richer, Damian Labuda
    posted to animals bibtex-import mammals phylogeny primates sequence-evolution vertebrates by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as **
  • notes Unexpected Conservation of the X-Linked Color Vision Gene in Nocturnal Prosimians: Evidence from Two Bush Babies
    Journal of Molecular Evolution, Vol. 45 (1997), pp. 610-618.
    by Yi H Zhou, Hewett D Emmet, JP Ward, Wen H Li
    posted to adaptation animals bibtex-import mammals primates sequence-evolution source-trees strepsirrhines vertebrates vision by rvosa to the group FAB-lab on 2008-02-06 23:58:31 as **
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