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Tag phyloinformatics [25 articles]

Recent papers classified by the tag phyloinformatics.
  • 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 algorithm analysis bioinformatics phyloinformatics by skhadar on 2008-02-27 06:57:51 as ** along with 5 people marti eckart_bindewald zwang asddd hpaces
  • Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
    Bioinformatics, Vol. 23, No. 1. (1 January 2007), pp. 127-128.
    by Letunic, Ivica, Bork, Peer
    posted to phyloinformatics by skhadar on 2008-02-27 07:00:20 as ** along with 5 people and 2 groups aramata guhjy marcius hpaces gjuggler BioinfoCIPF SGU-CIPF
  • Detecting Coevolution in and among Protein Domains
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e211.
    by Chen-Hsiang Yeang, David Haussler
    posted to bioinformatics phyloinformatics sequence_analysis by skhadar on 2008-02-27 06:58:55 as ** along with 11 people and 1 group balicea zwang sobolevnrm niallhaslam hpaces mingzhi Ema phoenixzxl penpen926 friendpine pradiptaray baker-group
  • The delayed rise of present-day mammals
    Nature, Vol. 446, No. 7135. (2007), pp. 507-512.
    by Olaf RP Bininda-Emonds, Marcel Cardillo, Kate E Jones, Ross DE Macphee, Robin MD Beck, Richard Grenyer, Samantha A Price, Rutger A Vos, John L Gittleman, Andy Purvis
    posted to biodiversity clock-like divergence diversification fossils phylogeny phyloinformatics primates ratio-test reconstruction substitution-models supertree by rvosa on 2007-10-13 22:04:44 as read along with 5 people and 2 groups bpcusack gjuggler dchughes nurban dwildman G4ID Genetics-of-Gambling
  • NEXUS: An Extensible File Format for Systematic Information
    Systematic Biology, Vol. 46, No. 4. (1997), pp. 590-621.
    by David R Maddison, David L Swofford, Wayne P Maddison
    posted to data-mining phyloinformatics software by rvosa on 2007-11-29 08:27:27 as ** along with 1 group FAB-lab
  • Detecting putative orthologs.
    Bioinformatics, Vol. 19, No. 13. (1 September 2003), pp. 1710-1711.
    by DP Wall, HB Fraser, AE Hirsh
    posted to algorithms alignment databases data-mining genome likelihood methods phylogenomics phyloinformatics by rvosa on 2008-08-08 07:27:51 as ** along with 6 people and 3 groups operon ana indigoviolet dquest ninch cerca structural_bioinformatics Bioinformatics EisenLab
  • An XML-based system for synthesis of data from disparate databases.
    J Am Med Inform Assoc, Vol. 13, No. 3. (n 2006), pp. 289-301.
    by T Kurc, DA Janies, AD Johnson, S Langella, S Oster, S Hastings, F Habib, T Camerlengo, D Ervin, UV Catalyurek, JH Saltz
    posted to comparative data-mining phyloinformatics reconstruction software by rvosa on 2007-11-27 23:34:46 as ** along with 1 group FAB-lab
  • A composite estimate of primate phylogeny.
    Philos Trans R Soc Lond B Biol Sci, Vol. 348, No. 1326. (29 June 1995), pp. 405-421.
    by A Purvis
    posted to algorithms animals biodiversity clock-like diversification fossils mammals mrp phylogeny phyloinformatics primates substitution-models supertree vertebrates by rvosa on 2007-10-13 21:47:21 as read along with 1 person kieran101
  • Heads or Tails: A Simple Reliability Check for Multiple Sequence Alignments
    Mol Biol Evol, Vol. 24, No. 6. (1 June 2007), pp. 1380-1383.
    by Giddy Landan, Dan Graur
    posted to algorithms alignment amino-acid data-mining dna methods phylogeny phyloinformatics sequence by rvosa on 2008-02-01 11:01:06 as ** along with 9 people and 1 group treangen druvus aprasad BioNica stajich cjeans zwang lilou mailund FAB-lab
  • Improving the specificity of high-throughput ortholog prediction.
    BMC Bioinformatics, Vol. 7, No. 1. (28 May 2006)
    by Debra L Fulton, Yvonne Y Li, Matthew R Laird, Benjamin G Horsman, Fiona M Roche, Fiona S Brinkman
    posted to algorithms alignment data-mining genome homology methods phylogenomics phyloinformatics by rvosa on 2008-08-08 07:17:36 as ** along with 4 people and 2 groups operon indigoviolet kaspermunch cerca Bioinformatics EisenLab
  • Integrating biological databases
    Nat Rev Genet, Vol. 4, No. 5. (May 2003), pp. 337-345.
    by Lincoln D Stein
    posted to databases data-mining phyloinformatics programming software xml by rvosa on 2008-05-13 01:24:04 as ** along with 10 people neils neilernst eweaver vaija laszlo8 hpiwowar fisherp lei cjeans angelika12
  • XML, bioinformatics and data integration.
    Bioinformatics, Vol. 17, No. 2. (February 2001), pp. 115-125.
    by F Achard, G Vaysseix, E Barillot
    posted to data-mining phyloinformatics programming software xml by rvosa on 2008-05-13 00:39:04 as ** along with 7 people and 2 groups irenas ingo andytseng yas dullhunk myui cjeans dbk-lab T_lab
  • Creating a bioinformatics nation.
    Nature, Vol. 417, No. 6885. (9 May 2002), pp. 119-120.
    by L Stein
    posted to databases data-mining phyloinformatics programming software xml by rvosa on 2008-05-13 01:24:01 as ** along with 11 people and 1 group irenas andytseng balicea moborg wnpx dullhunk fisherp cjeans sentausa pablomendes fgibson dbk-lab
  • XML: a lingua franca for science?
    Trends in Biotechnology, Vol. 18, No. 8. (1 August 2000), pp. 331-333.
    by Emmanuel Barillot, Frederic Achard
    posted to databases data-mining phyloinformatics programming software xml by rvosa on 2008-05-13 01:23:44 as ** along with 1 person cjeans
  • Automated ortholog inference from phylogenetic trees and calculation of orthology reliability.
    Bioinformatics, Vol. 18, No. 1. (January 2002), pp. 92-99.
    by CE Storm, EL Sonnhammer
    posted to algorithms genetics genome methods phylogenomics phylogeny phyloinformatics by rvosa on 2008-02-01 00:03:38 as ** along with 5 people and 1 group mdimmic operon dlr indigoviolet ninch EisenLab
  • Improved Consensus Network Techniques for Genome-Scale Phylogeny
    Molecular Biology and Evolution, Vol. 23, No. 5. (15 May 2006), pp. 848-855.
    by Barbara R Holland, Lars S Jermiin, Vincent Moulton
    posted to algorithms genome graph methods networks phylogenomics phylogeny phyloinformatics by rvosa on 2008-02-01 11:14:28 as ** along with 1 person and 1 group stajich FAB-lab
  • 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 on 2008-08-08 07:02:46 as ** along with 2 people and 2 groups dandaman stajich FAB-lab Berkeley Mycology
  • The small-world dynamics of tree networks and data mining in phyloinformatics.
    Bioinformatics, Vol. 19, No. 9. (12 June 2003), pp. 1162-1168.
    by WH Piel, MJ Sanderson, MJ Donoghue
    posted to data-mining networks phylogeny phyloinformatics by rvosa on 2005-10-13 12:56:43 as ** along with 1 group FAB-lab
  • Detecting and overcoming systematic errors in genome-scale phylogenies.
    Syst Biol, Vol. 56, No. 3. (June 2007), pp. 389-399.
    by N Rodríguez-Ezpeleta, H Brinkmann, B Roure, N Lartillot, BF Lang, H Philippe
    posted to algorithms databases data-mining genome methods phylogenomics phylogeny phyloinformatics by rvosa on 2008-02-01 11:12:38 as ** along with 3 people and 2 groups aprasad stajich dandaman FAB-lab Berkeley Mycology
  • Predicting functional gene links from phylogenetic-statistical analyses of whole genomes.
    PLoS Comput Biol, Vol. 1, No. 1. (June 2005), pp. e3-e3.
    by D Barker, M Pagel
    posted to genome networks ontology phylogenomics phylogeny phyloinformatics protein proteins proteomics statistics by rvosa on 2008-08-09 09:29:23 as ** along with 8 people and 1 group skembel Robinder rw294 balajis maryee arunyan bartleby pradiptaray iSEEM
  • Tree pattern matching in phylogenetic trees: automatic search for orthologs or paralogs in homologous gene sequence databases
    Bioinformatics, Vol. 21, No. 11. (1 June 2005), pp. 2596-2603.
    by Jean-Francois Dufayard, Laurent Duret, Simon Penel, Manolo Gouy, Francois Rechenmann, Guy Perriere
    posted to algorithms alignment databases data-mining genome methods phylogenomics phyloinformatics by rvosa on 2008-08-08 07:21:45 as ** along with 2 people and 2 groups ana stajich structural_bioinformatics Bioinformatics
  • Prospects for building the tree of life from large sequence databases.
    Science, Vol. 306, No. 5699. (12 November 2004), pp. 1172-1174.
    by AC Driskell, C Ané, JG Burleigh, MM McMahon, BC O'meara, MJ Sanderson
    posted to data-mining inference phylogeny phyloinformatics by rvosa on 2005-10-13 12:57:20 as ** along with 1 group FAB-lab
  • Profiling Phylogenetic Informativeness
    Systematic Biology, Vol. 56, No. 2. (2007), pp. 222-231.
    by Jeffrey P Townsend
    posted to algorithms animals characters data-mining mammals methods mice phylogeny phyloinformatics rodents vertebrates by rvosa on 2008-02-01 11:18:22 as ** along with 4 people and 2 groups gjuggler aprasad stajich Jporci FAB-lab Berkeley Mycology
  • Assessing performance of orthology detection strategies applied to eukaryotic genomes.
    PLoS ONE, Vol. 2 (2007)
    by F Chen, AJ Mackey, JK Vermunt, DS Roos
    posted to algorithms databases data-mining genome methods phylogenomics phylogeny phyloinformatics by rvosa on 2008-02-01 10:57:02 as ** along with 10 people and 3 groups druvus icases operon indigoviolet stajich cjeans winterschlaefer bpcusack cerca natstreet EisenLab FAB-lab TNT
  • Cophenetic correlation analysis as a strategy to select phylogenetically informative proteins: an example from the fungal kingdom
    BMC Evolutionary Biology, Vol. 7 (09 August 2007), 134.
    by Eiko E Kuramae, Vincent Robert, Carlos Echavarri-Erasun, Teun Boekhout
    posted to algorithms amino-acid data-mining fungi methods phylogenomics phylogeny phyloinformatics proteins by rvosa on 2008-02-01 11:30:06 as ** along with 1 person and 2 groups stajich FAB-lab Berkeley Mycology
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