Tag phylogenetic [154 articles] Export

Recent papers classified by the tag phylogenetic.

	Automated Phylogenetic Detection of Recombination Using a Genetic Algorithm [My Copy] Mol Biol Evol, Vol. 23, No. 10. (1 October 2006), pp. 1891-1901. by Sergei L. Kosakovsky Pond, David Posada, Michael B. Gravenor, Christopher H. Woelk, Simon D. W. Frost posted to tree these recombination phylogenetic by calderonv on 2009-11-05 15:54:47 as along with 5 people druvus operon Natasha Garamonfok larbiza
	The phylogenetic origins of the antigen-binding receptors and somatic diversification mechanisms [My Copy] Immunological Reviews, Vol. 200, No. 1. (August 2004), pp. 12-22. by John P. Cannon, Robert N. Haire, Jonathan P. Rast, Gary W. Litman posted to somatic-hypermutation phylogenetic origins ig history evolution antigen_binding adaptive_immune_system by tomhebbron on 2009-11-03 11:29:04 as
	A simple algorithm to infer gene duplication and speciation events on a gene tree [My Copy] Bioinformatics, Vol. 17, No. 9. (1 September 2001), pp. 821-828. by Christian M. Zmasek, Sean R. Eddy posted to tree these phylogenetic forester by calderonv on 2009-11-02 09:56:10 as along with 2 people cmzmasek stajich
	Phylogenetic structure in tropical hummingbird communities [My Copy] Proceedings of the National Academy of Sciences (18 September 2009) by Catherine H. Graham, Juan L. Parra, Carsten Rahbek, Jimmy A. McGuire posted to structure phylogenetic by iedwards on 2009-10-14 13:48:54 as
	Assessing the root of bilaterian animals with scalable phylogenomic methods [My Copy] Proceedings of the Royal Society B: Biological Sciences (16 September 2009) by Andreas Hejnol, Matthias Obst, Alexandros Stamatakis, et al.Michael Ott, Greg W. Rouse, Gregory D. Edgecombe, Pedro Martinez, Jaume BaguÃ±Ã, Xavier Bailly, Ulf Jondelius, Matthias Wiens, Werner E. G. MÃ¼ller, Elaine Seaver, Ward C. Wheeler, Mark Q. Martindale, Gonzalo Giribet, Casey W. Dunn posted to taxa phylogeny phylogenetic organisms molecular evolution entoprocta analysis by nesnidal on 2009-10-07 14:00:42 as along with 1 person operon
	Phylogeny.fr: robust phylogenetic analysis for the non-specialist [My Copy] Nucl. Acids Res., Vol. 36, No. suppl_2. (1 July 2008), pp. W465-469. by A. Dereeper, V. Guignon, G. Blanc, et al.S. Audic, S. Buffet, F. Chevenet, J. F. Dufayard, S. Guindon, V. Lefort, M. Lescot, J. M. Claverie, O. Gascuel posted to phyml phylogeny phylogenetic method bioinformatics analyses by BioNica on 2009-10-05 02:33:10 as along with 7 people biovils Eduvernois nlapalu treangen operon druvus sanchezbuelna
	Phylogenetic model evaluation. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 452 (2008), pp. 331-364. by Lars Sommer S. Jermiin, Vivek Jayaswal, Faisal Ababneh, John Robinson posted to phylogenetic model method by BioNica on 2009-09-30 19:32:03 as
	MRBAYES: Bayesian inference of phylogenetic trees [My Copy] Bioinformatics, Vol. 17, No. 8. (1 August 2001), pp. 754-755. by John P. Huelsenbeck, Fredrik Ronquist posted to phylogeny phylogenetics phylogenetic method by BioNica on 2009-09-28 19:34:21 as along with 9 people and 1 group ckenaley lmichan druvus treangen bpb rvosa spavey AaronDarling CharlesM FAB-lab
	The Tree of Life: A Phylogenetic Classification (Harvard University Press Reference Library) [My Copy] (15 January 2007) by Guillaume Lecointre, HervÃ© Le Guyader posted to tree phylogenetic life classification by nuttpo on 2009-09-22 06:39:15 as
	SIZE-CORRECTION AND PRINCIPAL COMPONENTS FOR INTERSPECIFIC COMPARATIVE STUDIES [My Copy] Evolution, Vol. 9999, No. 9999. (2009) by Liam J. Revell posted to statistics species_data species phylogenetic by sharpton to the group iSEEM on 2009-09-14 18:24:49 as
	Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models [My Copy] Nature Methods, Vol. 6, No. 9. (02 August 2009), pp. 673-676. by Arthur Brady, Steven L. Salzberg posted to 11-sep-09 training phylogenetic metagenomics hmms classification by robertrentzsch to the group Orengo Group Journal Picks on 2009-09-11 11:13:42 as along with 7 people and 3 groups azazello dakelley skembel Thaverkamp sharpton jbhiatt stajich iSEEM Journal picks Mycology
	Phylogenetic trait conservatism and the evolution of functional trade-offs in arbuscular mycorrhizal fungi [My Copy] Proceedings of the Royal Society B: Biological Sciences, Vol. 276, No. 1676. (7 December 2009), pp. 4237-4245. by Jeff R. Powell, Jeri L. Parrent, Miranda M. Hart, John N. Klironomos, Matthias C. Rillig, Hafiz Maherali posted to read phylogenetic fungi amf by maren on 2009-09-10 05:37:09 as
	Non-random coextinctions in phylogenetically structured mutualistic networks. [My Copy] Nature, Vol. 448, No. 7156. (23 August 2007), pp. 925-928. by Enrico L. Rezende, Jessica E. Lavabre, Paulo R. Guimarães, Pedro Jordano, Jordi Bascompte posted to symbiosis speciation phylogenetic_methods phylogenetic network_evolution network extinction correlated_evolution co-evolution by biomcgary on 2009-09-08 22:02:45 as along with 3 people kubyaddi cmm zwang
	Phylogenetic analysis. Models and estimation procedures. [My Copy] American journal of human genetics, Vol. 19, No. 3 Pt 1. (May 1967), pp. 233-257. by L. L. Cavalli-Sforza, A. W. Edwards posted to phylogenetic model classics by BioNica on 2009-09-07 21:24:33 as along with 1 person druvus
	Phylogenetic Conservatism of Extinctions in Marine Bivalves [My Copy] Science, Vol. 325, No. 5941. (7 August 2009), pp. 733-737. by Kaustuv Roy, Gene Hunt, David Jablonski posted to extinction paleontology phylogenetic by biomcgary on 2009-08-07 21:19:23 as along with 1 person dinnes
	The origin of malignant malaria [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 35. (1 September 2009), pp. 14902-14907. by Stephen M. Rich, Fabian H. Leendertz, Guang Xu, et al.Matthew LeBreton, Cyrille F. Djoko, Makoah N. Aminake, Eric E. Takang, Joseph L. D. Diffo, Brian L. Pike, Benjamin M. Rosenthal, Pierre Formenty, Christophe Boesch, Francisco J. Ayala, Nathan D. Wolfe posted to malaria phylogenetic reichenowi by ThomasDOtto on 2009-08-05 09:22:40 as along with 2 people Geknitics GeeSharpMinor
	$My PDF lozupone_05_unifrac.pdf$ UniFrac: a New Phylogenetic Method for Comparing Microbial Communities [My Copy] Appl. Environ. Microbiol., Vol. 71, No. 12. (1 December 2005), pp. 8228-8235. by Catherine Lozupone, Rob Knight posted to diversity method phylogenetic unifrac by sharpton on 2009-07-25 00:03:48 as along with 5 people and 1 group esyoun mlangill sameersoi jdelcampo sconlan Microbial-Ecology
	Search for a 'Tree of Life' in the thicket of the phylogenetic forest [My Copy] Journal of Biology, Vol. 8, No. 6. (2009), 59. by Pere Puigbo, Yuri Wolf, Eugene Koonin posted to phylogenetic by kiekyon on 2009-07-17 05:43:23 as along with 5 people livingthingdan pablocarb druvus barriot behindtherabbit
	Trees in the Web of Life [My Copy] Journal of Biology, Vol. 8, No. 6. (2009), 54. by Kristen Swithers, J. Peter Gogarten, Gregory Fournier posted to phylogenetic by kiekyon on 2009-07-17 05:39:22 as
	Rose: generating sequence families. [My Copy] Bioinformatics (Oxford, England), Vol. 14, No. 2. (1 March 1998), pp. 157-163. by J. Stoye, D. Evers, F. Meyer posted to bioinformatics model phylogenetic by hryk on 2009-06-29 22:47:54 as along with 3 people and 1 group djkt gjuggler adijr iSEEM
	RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2688-2690. by Alexandros Stamatakis posted to bioinformatics maximum-likelifood phylogenetic by hryk on 2009-06-29 19:55:05 as along with 7 people operon jpsullivan anisbet aprasad druvus johanviklund dmp
	Phylogenomic DatingâA Method of Constraining the Age of Microbial Taxa That Lack a Conventional Fossil Record [My Copy] Astrobiology, Vol. 9, No. 2. (March 2009), pp. 173-191. by Carrine E. Blank posted to archaea phylogenetic by skato_toyaku on 2009-06-09 01:36:04 as
	Phylogenomic DatingâThe Relative Antiquity of Archaeal Metabolic and Physiological Traits [My Copy] Astrobiology, Vol. 9, No. 2. (March 2009), pp. 193-219. by Carrine E. Blank posted to archaea phylogenetic by skato_toyaku on 2009-06-09 01:35:59 as
	Grafting the molecular phylogenetic tree with morphological branches to reconstruct the evolutionary history of the genus Zaprionus (Diptera: Drosophilidae) [My Copy] Molecular Phylogenetics and Evolution, Vol. 47, No. 3. (June 2008), pp. 903-915. by A. Yassin, L. Araripe, P. Capy, et al.J. Dalage, L. Klaczko, C. Maisonhaute, D. Ogereau, J. David posted to branches molecular morphological phylogenetic tree zaprionus by gwallau on 2009-06-03 19:18:38 as along with 1 person lizbiogen
	Potential natural product discovery from microbes through a diversity-guided computational framework [My Copy] Applied Microbiology and Biotechnology by Eakasit Pacharawongsakda, Sunai Yokwai, Supawadee Ingsriswang posted to diversity phylogenetic by supawadee on 2009-05-22 04:33:38 as
	Phylogenetic Resolution and Quantifying the Phylogenetic Diversity and Dispersion of Communities [My Copy] PLoS ONE, Vol. 4, No. 2. (5 February 2009), e4390. by Nathan G. Swenson posted to clustering dispersion diversity phylogenetic by elbrodie on 2009-05-14 20:11:55 as along with 1 person yuslinaz
	Estimating the tempo and mode of gene family evolution from comparative genomic data [My Copy] Genome Res., Vol. 15, No. 8. (1 August 2005), pp. 1153-1160. by Matthew W. Hahn, Tijl De Bie, Jason E. Stajich, Chi Nguyen, Nello Cristianini posted to algorithm cafe evolution genomes phylogenetic phylogeny by nlapalu on 2009-05-07 17:06:21 as along with 1 person Ema
	Many-core algorithms for statistical phylogenetics [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1370-1376. by Marc A. Suchard, Andrew Rambaut posted to parallel phylogenetic tree by Neeperando on 2009-04-16 17:43:54 as along with 9 people and 1 group mlangill druvus nuin AlexBateman bmajoros djkt jmeppley svenrahmann rdiaz iSEEM
	Evolutionary analysis of PHLPP1 gene in humans and non-human primates. [My Copy] Bioinformation, Vol. 2, No. 10. (2008), pp. 471-474. by P. Anbazhagan, M. Purushottam, H. B. Kumar, et al.S. Kubendran, O. Mukherjee, S. K. Brahmachari, S. Jain, R. Sowdhamini posted to analysis bipolar cag disorder evolution phlpp1 phylogenetic polyq repeat by ababubio on 2009-04-15 05:17:53 as
	Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes. [My Copy] Genome research, Vol. 17, No. 12. (7 December 2007), pp. 1932-1942. by Matthew D. Rasmussen, Manolis Kellis posted to genome methods phylogenetic phylogenomics by mmfonseca on 2009-04-14 15:23:10 as along with 6 people and 1 group roys inquil druvus dpollard stajich caseybrown EisenLab
	Phylogenetic analyses of Vitis (Vitaceae) based on complete chloroplast genome sequences: effects of taxon sampling and phylogenetic methods on resolving relationships among rosids. [My Copy] BMC evolutionary biology, Vol. 6 (2006) by R. K. Jansen, C. Kaittanis, C. Saski, et al.S. B. Lee, J. Tomkins, A. J. Alverson, H. Daniell posted to eucalyptus phylogenetic by orzenil on 2009-04-12 06:42:02 as
	Phylogenetic analysis of Clostridium botulinum type A by multi-locus sequence typing. [My Copy] Microbiology (Reading, England), Vol. 154, No. Pt 8. (August 2008), pp. 2408-2415. by M. J. Jacobson, G. Lin, T. S. Whittam, E. A. Johnson posted to a analysis botulinum clostridium multi-locus phylogenetic sequence type typing by Winzer on 2009-04-09 14:54:19 as
	The tree of genomes: An empirical comparison of genome phylogeny reconstruction methods. [My Copy] BMC Evolutionary Biology, Vol. 8 (12 November 2008), 312. by Angela Mccann, James A. Cotton, James O. Mcinerney posted to comparison genome phylogenetic tree by friendpine on 2009-04-03 04:04:16 as along with 4 people inquil operon druvus treangen
	Phylogenetic inference using whole genomes. [My Copy] Annual review of genomics and human genetics, Vol. 9, No. 1. (2008), pp. 217-231. by Bruce Rannala, Ziheng Yang posted to genome inference phylogenetic by friendpine on 2009-04-03 04:03:57 as along with 9 people and 1 group katholt inquil gwallau operon treangen druvus aprasad gjuggler zwang LabDros
	PhyME: a probabilistic algorithm for finding motifs in sets of orthologous sequences. [My Copy] BMC Bioinformatics, Vol. 5 (28 October 2004) by S. Sinha, M. Blanchette, M. Tompa posted to hmm phylogenetic by mgledi on 2009-03-25 14:22:39 as along with 5 people eckart_bindewald dquest adsmitty lusk xili03
	Immunology: a look toward the sea and what we have learned from tunicates [My Copy] Aquaculture, Vol. 132, No. 1-2. (15 April 1995), pp. 1-15. by E. Cooper posted to evolution immune phylogenetic by tomhebbron on 2009-03-24 12:13:26 as
	Maximum-likelihood analysis using TREE-PUZZLE. [My Copy] Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.], Vol. Chapter 6 (March 2007) by H. A. Schmidt, A. von Haeseler posted to method phylogenetic phylogenetics phylogeny programs by BioNica on 2009-03-15 02:09:18 as
	IQPNNI: moving fast through tree space and stopping in time. [My Copy] Molecular biology and evolution, Vol. 21, No. 8. (1 August 2004), pp. 1565-1571. by L. S. Vinh, A. von Haeseler posted to method phylogenetic phylogenetics phylogeny programs by BioNica on 2009-03-15 01:50:55 as
	A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. [My Copy] Systematic biology, Vol. 52, No. 5. (October 2003), pp. 696-704. by S. Guindon, O. Gascuel posted to method phylogenetic phylogenetics phylogeny phyml programs by BioNica on 2009-03-15 01:32:30 as along with 13 people and 1 group chica calderonv swp09 oceanwind druvus bpb chrn aprasad lyongu treangen Haggan cdallett Auger Dead 60's
	A clustering genetic algorithm for inferring protein-protein functional interactions from phylogenetic profiles [My Copy] Evolutionary Computation, 2008. CEC 2008. (IEEE World Congress on Computational Intelligence). IEEE Congress on In Evolutionary Computation, 2008. CEC 2008. (IEEE World Congress on Computational Intelligence). IEEE Congress on (2008), pp. 2757-2763. by J. J. Tapia, E. E. Vallejo posted to algorithms clustering genetic interactions phylogenetic profiles protein by jjtapiav on 2009-03-01 05:35:53 as
	Inferring the parameters of the neutral theory of biodiversity using phylogenetic information and implications for tropical forests [My Copy] Ecology Letters, Vol. 12, No. 3. (2009), pp. 239-248. by Franck Jabot, Jérôme Chave posted to forests phylogenetic untb by ltitodem on 2009-02-19 09:57:38 as
	CAFE: a computational tool for the study of gene family evolution [My Copy] Bioinformatics, Vol. 22, No. 10. (15 May 2006), pp. 1269-1271. by Tijl De Bie, Nello Cristianini, Jeffery P. Demuth, Matthew W. Hahn posted to cafe evolution families multi-genic ortholog phylogenetic tree by nlapalu on 2009-02-18 15:26:19 as
	Evaluation of an Improved Branch-Site Likelihood Method for Detecting Positive Selection at the Molecular Level [My Copy] Mol Biol Evol, Vol. 22, No. 12. (1 December 2005), pp. 2472-2479. by J. Zhang, R. Nielsen, Z. Yang posted to method molecular_evolution phylogenetic positive selection by BioNica on 2009-02-17 13:53:53 as along with 8 people and 1 group atphan clearbluespring stevanspringer AaronDarling usagi-kirin Garamonfok mingzhi CharlesM FAB-lab
	Characterizing the phylogenetic structure of communities by an additive partitioning of phylogenetic diversity [My Copy] Journal of Ecology, Vol. 95, No. 3. (May 2007), pp. 493-506. by Olivier J. Hardy, Bruno Senterre posted to community ecology phylogenetic by RLP on 2009-01-08 23:11:18 as along with 1 person skembel
	Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. [My Copy] Genome Res, Vol. 15, No. 8. (August 2005), pp. 1034-1050. by A. Siepel, G. Bejerano, J. S. Pedersen, et al.A. S. Hinrichs, M. Hou, K. Rosenbloom, H. Clawson, J. Spieth, L. W. Hillier, S. Richards, G. M. Weinstock, R. K. Wilson, R. A. Gibbs, W. J. Kent, W. Miller, D. Haussler posted to hmm phastcons phylogenetic sequence_alignment by alessandroparini on 2009-01-07 18:28:06 as along with 20 people and 4 groups thegoose2 farhat skembel tharris bpb aprasad balajis eckart_bindewald indigoviolet brant pradiptaray adepace djkt olympos sujaikumar Stew cisevol dmc elfar AlexanderPico C. elegans / WormBase EisenLab cis-regulatory-evolution ConklinLab
	A Hidden Markov Model approach to variation among sites in rate of evolution. [My Copy] Molecular biology and evolution, Vol. 13, No. 1. (January 1996), pp. 93-104. by J. Felsenstein, G. A. Churchill posted to conservation phastcons phylogenetic by alessandroparini on 2009-01-07 17:52:37 as along with 5 people sameersoi cmzmasek balicea gennaro tale
	The neighbor-joining method: a new method for reconstructing phylogenetic trees. [My Copy] Molecular biology and evolution, Vol. 4, No. 4. (1 July 1987), pp. 406-425. by N. Saitou, M. Nei posted to phylogenetic trees by cawelsh9 on 2008-12-19 19:11:26 as along with 17 people and 1 group vtraag qiang parnell esyoun forest2087 aprasad mount_misery cen4ik sandra_yu greger_halltorp taka gelack BioNica usagi-kirin ArtemPankin bandrewfox Auger Dead 60's
	Phylogenetic Approaches to the Study of Extinction [My Copy] Annual Review of Ecology, Evolution, and Systematics, Vol. 39, No. 1. (2008), pp. 301-319. by Andy Purvis posted to extinction phylogenetic by jlgreen to the group iSEEM on 2008-12-17 05:23:43 as along with 3 people and 1 group anphony lizbiogen zwang Green Lab
	Exploring the Relationship between Sequence Similarity and Accurate Phylogenetic Trees [My Copy] Molecular Biology and Evolution, Vol. 23, No. 11. (November 2006), pp. 2090-2100. by Cantarel, L. Brandi, Morrison, G. Hilary, Pearson, William posted to 2006 accuracy phylogenetic sequence similarity trees by treangen on 2008-12-03 15:48:47 as along with 4 people druvus gjuggler mblwhoi ArtemPankin
	XplorSeq: A software environment for integrated management and phylogenetic analysis of metagenomic sequence data [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (07 October 2008), 420. by Daniel Frank posted to metagenomics phylogenetic sequence software xplorseq by treangen on 2008-11-29 17:47:45 as along with 5 people and 3 groups vaulot jlgreen Thaverkamp ojabado nuin Papers recommended by the Roscoff Plankton Group Microbial-Ecology iSEEM

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evolution	26
tree	12
method	10
phylogeny	9
empirical	8
sequence	8
software	8
analysis	7
genome	7
protein	7
bioinformatics	6
eastman	6
molecular	6
trees	6
coevolution	5
extinction	5
model	5
motif	5
networks	5
rna	5
alignment	4
classification	4
diversity	4
dna	4
footprinting	4
likelihood	4
methods	4
phylogenetics	4
profile	4
profiles	4
sequences	4
structure	4
accuracy	3
alignments	3
bayesian	3
cichlid	3
co-evolution	3
community	3
conservation	3
hmm	3
interaction	3
malawi	3
metagenomics	3
multiple	3
ortholog	3
phenotype	3
phyml	3
prediction	3
programs	3
proteins	3
r1	3
ribosome	3
speciation	3
species	3
11-sep-09	2
3d	2
archaea	2
bacteria	2
bactrocera	2
biogenesis	2
biological	2
biology	2
bootstrap	2
cell	2
clostridium	2
comparative_methods	2
database	2
development	2
domain	2
embryogenesis	2
expression	2
gene	2
genetic	2
genomes	2
geography	2
hpv	2
incongruence	2
inference	2
information	2
la	2
lethal	2
microarray	2
modeling	2
multi-locus	2
mutation	2
nucleolar	2
nucleoplasm	2
parsing	2
phastcons	2
plant	2
ppi	2
programming	2
protein-protein	2
regions	2
species_data	2
statistics	2
thaliana	2
training	2
trna	2
validation	2

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