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Tag phylogenetic [85 articles]

Articoli recentemente classificati sotto il tag phylogenetic.
  • Discovering functional linkages and uncharacterized cellular pathways using phylogenetic profile comparisons: a comprehensive assessment
    BMC Bioinformatics, Vol. 8 (23 May 2007), 173.
    by Raja Jothi, Teresa M Przytycka, L Aravind
    posted to phylogenetic protein-function-prediction by yas on 2007-05-24 18:50:56 as ** along with 1 group T_lab
  • Assessment of the genetic diversity and phylogenetic relationships of a temperate bamboo collection by using transferred EST-SSR markers
    Genome, Vol. 48, No. 4. (1 August 2005), pp. 731-737.
    by NA Barkley, ML Newman, ML Wang, MW Hotchkiss, GA Pederson
    posted to a and assessment bamboo by collection diversity est-ssr genetic markers of phylogenetic relationships temperate the transferred using by xixibio on 2006-04-19 13:56:48 as ** along with 1 person yife
  • Phylogenetic and comparative gene expression analysis of barley (Hordeum vulgare) WRKY transcription factor family reveals putatively retained functions between monocots and dicots
    BMC Genomics, Vol. 9 (28 April 2008), 194.
    by Elke Mangelsen, Joachim Kilian, Kenneth W Berendzen, Uener H Kolukisaoglu, Klaus Harter, Christer Jansson, Dierk Wanke
    posted to phylogenetic gene expression by tonia_schwartz on 2008-05-01 15:51:18 as ** along with 1 person moborg
  • A distance metric for a class of tree-sibling phylogenetic networks
    Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. 1481-1488.
    by Gabriel Cardona, Merce Llabres, Francesc Rossello, Gabriel Valiente
    posted to phylogenetic networks metric distance bioinfpdl by Tingting on 2008-06-27 09:28:49 as ****
  • Phylogenetic comparative methods and the geography of speciation
    Trends in Ecology & Evolution, Vol. 18, No. 5. (May 2003), pp. 220-227.
    by Jonathan B Losos, Richard E Glor
    posted to and comparative geography methods of phylogenetic speciation the by sunye on 2007-12-09 03:26:33 as ** along with 1 person adacier
  • Combining Statistical Alignment and Phylogenetic Footprinting to Detect Regulatory Elements.
    Bioinformatics (18 March 2008)
    by R Satija, L Pachter, J Hein
    posted to regulatory prediction phylogenetic footprinting drosophila cis-regulatory alignment by Stew on 2008-06-06 08:24:29 as **** along with 4 people Ema gjuggler maximilianh eckart_bindewald
  • CSMET: Comparative Genomic Motif Detection via Multi-Resolution Phylogenetic Shadowing
    PLoS Comput Biol, Vol. 4, No. 6. (6 June 2008), e1000090.
    by Pradipta Ray, Suyash Shringarpure, Mladen Kolar, Eric P Xing
    posted to phylogenetic motif genomics footprinting detection comparative by Stew on 2008-06-14 14:43:13 as ***** along with 3 people and 1 group Ema cisevol djkt cis-regulatory-evolution
  • ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information.
    Bioinformatics, Vol. 19, No. 1. (January 2003), pp. 163-164.
    by F Glaser, T Pupko, I Paz, RE Bell, D Bechor-Shental, E Martz, N Ben-Tal
    posted to consurf detection functional information mapping phylogenetic proteins regions surface by siebertm on 2007-05-22 14:41:58 as * along with 2 people chrn bicko
  • Microbial life at high salt concentrations: phylogenetic and metabolic diversity
    Saline Systems, Vol. 4 (15 April 2008), 2.
    by Aharon Oren
    posted to review phylogenetic oren metabolism by rowenabrennavart on 2008-04-24 16:28:17 as *****
  • PAML: a program package for phylogenetic analysis by maximum likelihood.
    Comput Appl Biosci, Vol. 13, No. 5. (October 1997), pp. 555-556.
    by Z Yang
    posted to likelihood maximum paml phylogenetic r1 software by pv on 2007-03-19 12:15:45 as ** along with 11 people and 3 groups skumagai tharris bjorns chrn chad_davis indigoviolet penka BioNica stajich usagi-kirin jmjimenez EisenLab Nie Berkeley Mycology
  • PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006)
    by M Suyama, D Torrents, P Bork
    posted to alignments codon pal2nal phylogenetic r1 software by pv on 2007-03-19 12:09:03 as ** along with 1 person bluesky2006
  • Phylogenetic incongruence among oncogenic genital alpha human papillomaviruses.
    J Virol, Vol. 79, No. 24. (December 2005), pp. 15503-15510.
    by A Narechania, Z Chen, R DeSalle, RD Burk
    posted to alpha hpv incongruence phylogenetic by pv on 2006-12-12 17:00:19 as ** along with 2 people bpb chrn
  • r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock.
    Bioinformatics, Vol. 19, No. 2. (22 January 2003), pp. 301-302.
    by MJ Sanderson
    posted to absolute clock divergence evolution molecular phylogenetic r1 r8s rates software times by pv on 2007-03-19 11:57:26 as ** along with 1 person operon
  • Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes.
    Nucleic Acids Res, Vol. 29, No. 3. (1 February 2001), pp. 774-782.
    by L McCue, W Thompson, C Carmack, MP Ryan, JS Liu, V Derbyshire, CE Lawrence
    posted to gibbs phylogenetic sampling by nklee on 2008-01-22 00:36:18 as ** along with 2 people and 1 group dquest adepace EisenLab
  • Tick-borne Disease Systems: Mapping Geographic and Phylogenetic Space.
    Adv Parasitol, Vol. 62 (2006), pp. 263-291.
    by SE Randolph, DJ Rogers
    posted to ehrlichiosis phylogenetic tick-borne ticks by neteler on 2007-05-07 14:26:24 as ** along with 1 person carpi
  • Comparative Phylogenetic Analysis of the Evolution of Semelparity and Life History in Salmonid Fishes
    Evolution, Vol. 56, No. 5. (2002), pp. 1008-1020.
    by Bernard J Crespi, Roy Teo
    posted to phylogenetic semelparity by MartinBrummell on 2006-05-16 21:58:03 as ***
  • Estimating true evolutionary distances under the DCJ model
    Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i114-122.
    by Yu Lin, Bernard M Moret
    posted to phylogenetic by marck on 2008-06-30 03:33:48 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 phylogenetic by marck on 2008-07-04 03:52:27 as ** along with 3 people gulsacan dchughes caseybrown
  • Population Genetics of the Oriental Fruit Fly, Bactrocera dorsalis (Diptera: Tephritidae), in Yunnan (China) Based on Mitochondrial DNA Sequences
    Environmental Entomology, Vol. 34, No. 4. (August 2005), pp. 977-983.
    by Wei Shi, Carole Kerdelhue, Hui Ye
    posted to bactrocera phylogenetic tephritidae by lucamazzon on 2005-11-22 13:40:55 as ***
  • Phylogenetic relationships among Bactrocera species (Diptera: Tephritidae) inferred from mitochondrial DNA sequences
    Molecular Phylogenetics and Evolution, Vol. 26, No. 1. (January 2003), pp. 8-17.
    by PT Smith, S Kambhampati, KA Armstrong
    posted to bactrocera phylogenetic tephritidae by lucamazzon on 2005-11-22 13:39:16 as **
  • Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks
    Mol Syst Biol, Vol. 2, No. 1. (31 January 2006), pp. msb4100047-E1-msb4100047-E14.
    by Noam Slonim, Olivier Elemento, Saeed Tavazoie
    posted to bacteria evolution modules phenotype phylogenetic by koller on 2006-08-25 01:31:43 as *** along with 5 people and 2 groups okarsligil ccots balajis cmm dylan77 Bioinformatics FAB-lab
  • Fine-scale phylogenetic architecture of a complex bacterial community.
    Nature, Vol. 430, No. 6999. (29 July 2004), pp. 551-554.
    by SG Acinas, V Klepac-Ceraj, DE Hunt, C Pharino, I Ceraj, DL Distel, MF Polz
    posted to phylogenetic by kerekesj on 2008-04-08 05:30:58 as ** along with 4 people mcox jmeppley bluto Thaverkamp
  • Phylogenetic Analysis and the Study of Community Structure
    Oikos, Vol. 82, No. 2. (1998), pp. 397-400.
    by Philippe Grandcolas
    posted to analysis community phylogenetic strucutre by kerekesj on 2008-03-13 17:23:46 as **
  • FootPrinter: A program designed for phylogenetic footprinting.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3840-3842.
    by M Blanchette, M Tompa
    posted to factor footprinting phylogenetic transcription by kaur on 2005-10-09 17:10:05 as read along with 2 people chad_davis balajis
  • notes Multiple losses of sex within a single genus of Microsporidia
    BMC Evolutionary Biology, Vol. 7 (29 March 2007), 48.
    by Joseph E Ironside
    posted to analysis microsporidia nosema phylogenetic rpb1gene rrna sequences sex vairimorpha by jwelby on 2007-07-31 10:13:02 as ***
  • A Three-Stemmed mRNA Pseudoknot in the SARS Coronavirus Frameshift Signal
    PLoS Biology, Vol. 3, No. 6. (1 June 2005), e172.
    by Ewan P Plant, Gabriela C Pérez-Alvarado, Jonathan L Jacobs, Bani Mukhopadhyay, Mirko Hennig, Jonathan D Dinman
    posted to genetics coronavirus genomics computational database frameshift genbank motif mrna mutagenesis mutation phylogenetic predicted protein pseudoknot ribosome rna structure viral by jonathanjacobs on 2008-03-28 04:27:36 as ** along with 1 person physics
  • A bona fide La protein is required for embryogenesis in Arabidopsis thaliana
    Nucl. Acids Res., Vol. 35, No. 10. (11 May 2007), pp. 3306-3321.
    by Sophie Fleurdepine, Jean-Marc Deragon, Martine Devic, Jocelyne Guilleminot, Cecile Bousquet-Antonelli
    posted to arabidopsis biogenesis cerevisiae development embryogenesis embryonic genome la lethal motif mutant nuclear nucleolar nucleoplasm phenotype phylogenetic plant protein ribosome rna saccharomyces thaliana by jonathanjacobs on 2008-04-08 19:44:53 as read along with 1 group The La Autoantigen.
  • 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 matrices prediction treedistance phylogenetic ppi by iris_2001 on 2007-02-27 19:03:45 as ** along with 1 person zwang
  • OrthoMaM: A database of orthologous genomic markers for placental mammal phylogenetics
    BMC Evolutionary Biology, Vol. 7 (30 November 2007), 241.
    by Vincent Ranwez, Frederic Delsuc, Sylvie Ranwez, Khalid Belkir, Marie-Ka Tilak, Emmanuel JP Douzery
    posted to orthologues phylogenetic tool by idonaldson on 2008-01-10 12:35:15 as *** along with 1 person aprasad
  • 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 phylogenetic tree by hdsskin on 2008-03-25 17:08:38 as ***** along with 4 people fhsantanna bayesian ykadi gulsacan
  • Bioinformatics: an introduction for computer scientists
    ACM Comput. Surv., Vol. 36, No. 2. (June 2004), pp. 122-158.
    by Jacques Cohen
    posted to alignments and biological biology cell computer dna dynamic hidden-markov-models microarray modeling molecular parsing phylogenetic programming protein rna sequences simulation structure trees by afragop to the group Complex_Real_Networks on 2006-02-25 20:48:45 as **** along with 10 people and 2 groups quianominorleo neilernst malenitah2 asilva Ayest smithco eweaver bigbossman mmuecke sugarexpletive CHISEL Plant-Tissue-Simulation
  • Nuclear Gene Variation and Molecular Dating of the Cichlid Species Flock of Lake Malawi
    Molecular Biology and Evolution, Vol. 23, No. 4. (April 2006), pp. 828-837.
    by Yong-Jin Won, Yong Wang, Arjun Sivasundar, Jeremy Raincrow, Jody Hey
    posted to cichlid malawi phylogenetic by breden to the group FAB-lab on 2006-07-31 21:55:28 as ** along with 1 person and 1 group akifumi SFUAntibodyResearch
  • Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data
    BMC Evolutionary Biology, Vol. 7 (29 November 2007), 237.
    by Frederic Lemoine, Olivier Lespinet, Bernard Labedan
    posted to orthology phylogenetic prokaryotes by stajich to the group Berkeley Mycology on 2007-12-05 05:01:44 as **
  • Taxonomic colouring of phylogenetic trees of protein sequences.
    BMC Bioinformatics, Vol. 7 (2006)
    by G Palidwor, EG Reynaud, MA Andrade-Navarro
    posted to phylogenetic visualization by gpalidwor on 2006-10-22 03:51:48 as **
  • The Rieske Protein: A Case Study on the Pitfalls of Multiple Sequence Alignments and Phylogenetic Reconstruction
    Molecular Biology and Evolution, Vol. 23, No. 6. (June 2006), pp. 1180-1191.
    by Lebrun, Evelyne, Santini, M Joanne, Brugna, Myriam, Ducluzeau, Anne-Lise, Ouchane, Soufian, Schoepp-Cothenet, Barbara, Baymann, Frauke, Nitschke, Wolfgang
    posted to phylogenetic rieske by enbrown on 2007-06-22 04:35:40 as read
  • BAli-Phy: simultaneous Bayesian inference of alignment and phylogeny.
    Bioinformatics (5 May 2006)
    by Marc A A Suchard, Benjamin D D Redelings
    posted to alignment bayesian phylogenetic by eckart_bindewald on 2006-05-09 20:08:05 as **** along with 3 people and 1 group aprasad indigoviolet AaronDarling EisenLab
  • Combining phylogenetic data with co-regulated genes to identify regulatory motifs.
    Bioinformatics, Vol. 19, No. 18. (12 December 2003), pp. 2369-2380.
    by T Wang, GD Stormo
    posted to alignment discovery motif ortholog phylogenetic by eckart_bindewald on 2008-03-25 20:43:30 as *** along with 3 people balajis dquest natstreet
  • Paloverde: an OpenGL 3-D phylogeny browser.
    Bioinformatics (24 February 2006)
    by Michael J J Sanderson
    posted to 3d phylogenetic visualization by eckart_bindewald on 2006-02-28 15:45:56 as *** along with 2 people aprasad akifumi
  • 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 3d function phylogenetic prediction protein by eckart_bindewald on 2008-03-18 17:26:00 as ***** along with 4 people skhadar zwang asddd hpaces
  • Phylogenetically enhanced statistical tools for RNA structure prediction.
    Bioinformatics, Vol. 16, No. 6. (June 2000), pp. 501-512.
    by VR Akmaev, ST Kelley, GD Stormo
    posted to information mutual phylogenetic trna by eckart_bindewald on 2006-01-18 20:36:00 as ***
  • Beyond Pairwise Distances: Neighbor-Joining with Phylogenetic Diversity Estimates
    Molecular Biology and Evolution, Vol. 23, No. 3. (March 2006), pp. 491-498.
    by Dan Levy, Ruriko Yoshida, Lior Pachter
    posted to nj phylogenetic by cvernesi on 2006-02-16 08:22:30 as *** along with 2 people akifumi ArtemPankin
  • Domain Tree Based Analysis of Protein Architecture Evolution
    Mol Biol Evol (19 November 2007), msm254.
    by Kristoffer Forslund, Anna Henricson, Volker Hollich, Erik L Sonnhammer
    posted to domain evolution phylogenetic by cjeans on 2007-11-21 06:16:36 as ** along with 1 person vinithepooh
  • Assessing Protein Co-evolution in the Context of the Tree of Life Assists in the Prediction of the Interactome
    Journal of Molecular Biology, Vol. 352, No. 4. (30 September 2005), pp. 1002-1015.
    by Florencio Pazos, Juan A Ranea, David Juan, Michael J Sternberg
    posted to profile phylogenetic coevolution by cjeans on 2007-02-04 13:47:00 as **** along with 1 person balajis
  • The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships
    Bioinformatics, Vol. 21, No. 17. (1 September 2005), pp. 3482-3489.
    by Tetsuya Sato, Yoshihiro Yamanishi, Minoru Kanehisa, Hiroyuki Toh
    posted to profile phylogenetic coevolution by cjeans on 2007-02-04 13:46:25 as ****
  • The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships.
    Bioinformatics, Vol. 21, No. 17. (1 September 2005), pp. 3482-3489.
    by T Sato, Y Yamanishi, M Kanehisa, H Toh
    posted to profile phylogenetic coevolution by cjeans on 2007-02-04 13:41:40 as **** along with 2 people bioinfo bilab
  • Is multiple-sequence alignment required for accurate inference of phylogeny?
    Syst Biol, Vol. 56, No. 2. (April 2007), pp. 206-221.
    by M Höhl, MA Ragan
    posted to align-free evolution phylogenetic by cjeans on 2007-06-26 05:11:03 as ** along with 1 person treangen
  • Specificity in protein interactions and its relationship with sequence diversity and coevolution.
    Proc Natl Acad Sci U S A (27 April 2007)
    by Luke Hakes, Simon C C Lovell, Stephen G G Oliver, David L L Robertson
    posted to coevolution expression interaction mirrortree phylogenetic by cjeans on 2007-06-11 14:40:31 as read along with 9 people and 2 groups stevanspringer bjorns zwang Garamonfok cursonivel1 tale winterschlaefer phoenixzxl chrys FAB-lab cursonivel1
  • The new animal phylogeny: reliability and implications.
    Proc Natl Acad Sci U S A, Vol. 97, No. 9. (25 April 2000), pp. 4453-4456.
    by A Adoutte, G Balavoine, N Lartillot, O Lespinet, B Prud'homme, R de Rosa
    posted to evolution phylogenetic by cjeans on 2007-06-30 15:22:46 as **** along with 3 people tanchize altotor hervelequere
  • PhyloPat: phylogenetic pattern analysis of eukaryotic genes
    BMC Bioinformatics, Vol. 7 (01 September 2006), 398.
    by Tim Hulsen, Jacob de Vlieg, Peter MA Groenen
    posted to evolution ortholog phylogenetic by cjeans on 2007-06-12 10:47:53 as *** along with 1 person asddd
  • Fair-Balance Paradox, Star-Tree Paradox and Bayesian Phylogenetics.
    Mol Biol Evol (7 May 2007)
    by Ziheng Yang
    posted to evolution phylogenetic by cjeans on 2007-07-10 07:30:08 as ** along with 3 people aprasad akifumi ryanraaum
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