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AaronDarling phylogenetics [28 articles]

Recent papers added to AaronDarling library classified by the tag phylogenetics. You can also see everyone's phylogenetics.
  • A bimodal pattern of relatedness between the Salmonella Paratyphi A and Typhi genomes: Convergence or divergence by homologous recombination.
    Genome Res (7 November 2006)
    by Xavier Didelot, Mark Achtman, Julian Parkhill, Nicholas R R Thomson, Daniel Falush
    posted to geneconversion microbialevolution phylogenetics populationgenetics by AaronDarling on 2008-02-28 09:00:06 as ** along with 4 people aswin aiolozil pnicolas Xavier
  • A bayesian analysis of metazoan mitochondrial genome arrangements.
    Mol Biol Evol, Vol. 22, No. 3. (March 2005), pp. 486-495.
    by B Larget, DL Simon, JB Kadane, D Sweet
    posted to genomeevolution genomerearrangement inversions phylogenetics by AaronDarling on 2007-10-15 06:41:04 as **
  • Comment on "Phylogenetic MCMC Algorithms Are Misleading on Mixtures of Trees"
    Science, Vol. 312, No. 5772. (21 April 2006), 367a.
    by Fredrik Ronquist, Bret Larget, John P Huelsenbeck, Joseph B Kadane, Donald Simon, Paul van der Mark
    posted to phylogenetics by AaronDarling on 2007-08-21 01:45:44 as read along with 1 person aprasad
  • Bayesian estimation of concordance among gene trees.
    Mol Biol Evol, Vol. 24, No. 2. (February 2007), pp. 412-426.
    by C Ané, B Larget, DA Baum, SD Smith, A Rokas
    posted to phylogenetics by AaronDarling on 2007-08-17 01:06:47 as ** along with 1 person and 1 group dpollard EisenLab
  • Gene gain and gene loss in streptococcus: is it driven by habitat?
    Mol Biol Evol, Vol. 23, No. 12. (December 2006), pp. 2379-2391.
    by PR Marri, W Hao, GB Golding
    posted to genomeevolution horizontaltransfer phylogenetics by AaronDarling on 2007-02-22 11:33:54 as ** along with 1 person treangen
  • Current approaches to whole genome phylogenetic analysis.
    Brief Bioinform, Vol. 4, No. 1. (March 2003), pp. 63-74.
    by G Sawa, J Dicks, IN Roberts
    posted to phylogenetics genomerearrangement by AaronDarling on 2007-01-24 09:56:14 as **
  • Application of phylogenetic networks in evolutionary studies.
    Mol Biol Evol, Vol. 23, No. 2. (February 2006), pp. 254-267.
    by DH Huson, D Bryant
    posted to phylogenetics by AaronDarling on 2007-01-22 09:30:50 as **
  • Microinversions in mammalian evolution
    PNAS, Vol. 103, No. 52. (26 December 2006), pp. 19824-19829.
    by MJ Chaisson, BJ Raphael, PA Pevzner
    posted to phylogenetics inversions genomerearrangement by AaronDarling on 2007-01-22 09:12:37 as ** along with 1 person aprasad
  • Genome rearrangement distances and gene order phylogeny in gamma-Proteobacteria.
    Mol Biol Evol, Vol. 22, No. 6. (June 2005), pp. 1456-1467.
    by E Belda, A Moya, FJ Silva
    posted to genomerearrangement phylogenetics by AaronDarling on 2006-07-12 19:26:37 as ** along with 1 person bjorns
  • Dating of the human-ape splitting by a molecular clock of mitochondrial DNA.
    J Mol Evol, Vol. 22, No. 2. (1985), pp. 160-174.
    by M Hasegawa, H Kishino, T Yano
    posted to evolution phylogenetics speciation by AaronDarling on 2006-07-11 07:51:49 as ** along with 2 people Natasha lusk
  • Scaling up accurate phylogenetic reconstruction from gene-order data.
    Bioinformatics, Vol. 19 Suppl 1 (2003)
    by J Tang, BM Moret
    posted to genomerearrangement phylogenetics by AaronDarling on 2006-07-04 01:41:21 as **
  • Genome-scale evolution: reconstructing gene orders in the ancestral species.
    Genome Res, Vol. 12, No. 1. (January 2002), pp. 26-36.
    by G Bourque, PA Pevzner
    posted to genomerearrangement phylogenetics by AaronDarling on 2006-07-04 01:40:07 as ** along with 1 person Neeperando
  • Bayesian coestimation of phylogeny and sequence alignment.
    BMC Bioinformatics, Vol. 6 (2005)
    by G Lunter, I Miklós, A Drummond, JL Jensen, J Hein
    posted to phylogenetics statisticalalignment by AaronDarling on 2006-07-04 01:36:31 as ** along with 5 people pradiptaray Patola bpb timflutre adsmitty
  • Relaxed Phylogenetics and Dating with Confidence
    PLoS Biology, Vol. 4, No. 5. (1 May 2006)
    by Alexei J Drummond, Simon Y Ho, Matthew J Phillips, Andrew Rambaut
    posted to evolution mcmc phylogenetics populationgenetics recombination by AaronDarling on 2006-07-04 01:31:08 as ** along with 2 people brixtonmc redelings
  • Visualization of the phylogenetic content of five genomes using dekapentagonal maps.
    Genome Biol, Vol. 5, No. 3. (2004)
    by O Zhaxybayeva, L Hamel, J Raymond, JP Gogarten
    posted to phylogenetics visualization by AaronDarling on 2006-07-04 00:14:23 as **
  • Bayesian phylogenetic inference via Markov chain Monte Carlo methods.
    Biometrics, Vol. 55, No. 1. (March 1999), pp. 1-12.
    by B Mau, MA Newton, B Larget
    posted to mcmc phylogenetics by AaronDarling on 2006-07-04 00:03:44 as **
  • A hybrid clustering approach to recognition of protein families in 114 microbial genomes.
    BMC Bioinformatics, Vol. 5 (29 April 2004)
    by TJ Harlow, JP Gogarten, MA Ragan
    posted to cog phylogenetics by AaronDarling on 2006-07-04 00:02:05 as **
  • Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution.
    Mol Biol Evol, Vol. 15, No. 5. (May 1998), pp. 568-573.
    by Z Yang
    posted to evolution nsfprop phylogenetics by AaronDarling on 2006-04-10 18:18:30 as read along with 2 people usagi-kirin Garamonfok
  • Relaxed Phylogenetics and Dating with Confidence
    PLoS Biology, Vol. 4, No. 5. (May 2006)
    by Alexei J Drummond, Simon YW Ho, Matthew J Phillips, Andrew Rambaut
    posted to coalescent evolution nsfprop phylogenetics populationgenetics by AaronDarling on 2006-04-06 23:26:27 as **
  • Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation.
    BMC Evol Biol, Vol. 5, No. 1. (28 January 2005)
    by JC Mar, TJ Harlow, MA Ragan
    posted to evolution mrbayes nsfprop phylogenetics by AaronDarling on 2006-04-06 21:35:55 as ** along with 2 people aprasad balajis
  • notes The coalescent
    Stochastic Processes and Their Applications, Vol. 13 (1982), pp. 235-248.
    by JFC Kingman
    posted to coalescent nsfprop phylogenetics populationgenetics by AaronDarling on 2006-04-06 21:28:46 as **
  • Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data.
    Genetics, Vol. 161, No. 3. (July 2002), pp. 1307-1320.
    by AJ Drummond, GK Nicholls, AG Rodrigo, W Solomon
    posted to coalescent evolution mcmc nsfprop phylogenetics populationgenetics by AaronDarling on 2006-04-06 20:53:35 as ** along with 1 person and 1 group kaspermunch Bioinformatics
  • LAMARC 2.0: maximum likelihood and Bayesian estimation of population parameters.
    Bioinformatics, Vol. 22, No. 6. (15 March 2006), pp. 768-770.
    by MK Kuhner
    posted to evolution nsfprop phylogenetics populationgenetics recombination by AaronDarling on 2006-04-06 20:48:52 as **
  • Discriminating between rate heterogeneity and interspecific recombination in DNA sequence alignments with phylogenetic factorial hidden Markov models.
    Bioinformatics, Vol. 21 Suppl 2 (1 September 2005)
    by D Husmeier
    posted to nsfprop phylogenetics recombination by AaronDarling on 2006-04-06 20:40:01 as **
  • notes Dual multiple change-point model leads to more accurate recombination detection.
    Bioinformatics, Vol. 21, No. 13. (1 July 2005), pp. 3034-3042.
    by VN Minin, KS Dorman, F Fang, MA Suchard
    posted to nsfprop phylogenetics recombination by AaronDarling on 2006-04-06 20:39:27 as read
  • MrBayes 3: Bayesian phylogenetic inference under mixed models.
    Bioinformatics, Vol. 19, No. 12. (12 August 2003), pp. 1572-1574.
    by F Ronquist, JP Huelsenbeck
    posted to evolution nsfprop phylogenetics by AaronDarling on 2006-04-06 20:32:46 as read along with 3 people and 1 group chrn rvosa spavey FAB-lab
  • notes MRBAYES: Bayesian inference of phylogenetic trees.
    Bioinformatics, Vol. 17, No. 8. (August 2001), pp. 754-755.
    by JP Huelsenbeck, F Ronquist
    posted to evolution nsfprop phylogenetics by AaronDarling on 2006-04-06 20:32:13 as read along with 4 people and 1 group bpb rvosa spavey CharlesM FAB-lab
  • Genome-scale approaches to resolving incongruence in molecular phylogenies.
    Nature, Vol. 425, No. 6960. (23 October 2003), pp. 798-804.
    by A Rokas, BL Williams, N King, SB Carroll
    posted to genomeevolution nsfprop phylogenetics speciestree by AaronDarling on 2006-04-06 20:30:45 as ** along with 3 people knaseanka aprasad srfairclough
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