akifumi's library 71 articles Export

	Increasing the Efficiency of Searches for the Maximum Likelihood Tree in a Phylogenetic Analysis of up to 150 Nucleotide Sequences. [My Copy] Syst Biol, Vol. 56, No. 6. (December 2007), pp. 988-1010. by D. A. Morrison posted to maximum-likelihood tree-search by akifumi on 2007-12-13 12:49:03 as along with 2 people druvus aprasad
	Phylogenetic systematics and biogeography of hummingbirds: Bayesian and maximum likelihood analyses of partitioned data and selection of an appropriate partitioning strategy. [My Copy] Syst Biol, Vol. 56, No. 5. (October 2007), pp. 837-856. by J. A. McGuire, C. C. Witt, D. L. Altshuler, J. V. Remsen posted to data-partitioning multilocus-data by akifumi on 2007-12-13 12:46:39 as
	Phylogenetic Mixtures on a Single Tree Can Mimic a Tree of Another Topology [My Copy] Systematic Biology, Vol. 56, No. 5. (October 2007), pp. 767-775. by Matsen, Frederick, Steel, Mike posted to data-incongruence phylogenetics by akifumi on 2007-12-13 12:45:14 as
	The importance of data partitioning and the utility of Bayes factors in Bayesian phylogenetics. [My Copy] Syst Biol, Vol. 56, No. 4. (August 2007), pp. 643-655. by J. M. Brown, A. R. Lemmon posted to data-partitioning multilocus-data phylogenetics by akifumi on 2007-12-13 12:43:17 as
	Experimental design criteria in phylogenetics: where to add taxa. [My Copy] Syst Biol, Vol. 56, No. 4. (August 2007), pp. 609-622. by K. Geuten, T. Massingham, P. Darius, E. Smets, N. Goldman posted to phylogenetics taxon-sampling by akifumi on 2007-12-13 12:41:45 as along with 1 person gjuggler
	Species Trees from Gene Trees: Reconstructing Bayesian Posterior Distributions of a Species Phylogeny Using Estimated Gene Tree Distributions [My Copy] Syst Biol, Vol. 56, No. 3. (1 June 2007), pp. 504-514. by Liang Liu, Dennis K. Pearl posted to gene-tree phylogenetics species-tree by akifumi on 2007-12-13 12:40:08 as along with 3 people lizbiogen druvus aprasad
	Correcting the problem of false incongruence due to noise imbalance in the incongruence length difference (ILD) test. [My Copy] Syst Biol, Vol. 56, No. 3. (June 2007), pp. 496-503. by D. L. Quicke, O. R. Jones, D. R. Epstein posted to data-incongruence ild-test by akifumi on 2007-12-13 12:38:25 as
	Majority-Rule Supertrees [My Copy] Syst Biol, Vol. 56, No. 3. (1 June 2007), pp. 445-452. by James A. Cotton, Mark Wilkinson posted to supertree by akifumi on 2007-12-13 12:38:02 as along with 1 person lizbiogen
	Estimating Species Phylogeny from Gene-Tree Probabilities Despite Incomplete Lineage Sorting: An Example from Melanoplus Grasshoppers [My Copy] Syst Biol, Vol. 56, No. 3. (1 June 2007), pp. 400-411. by Bryan C. Carstens, Lacey L. Knowles posted to gene-tree lineage-sorting phylogenetics species-tree by akifumi on 2007-12-13 12:36:46 as along with 1 person lizbiogen
	Seeing the trees for the network: consensus, information content, and superphylogenies. [My Copy] Syst Biol, Vol. 56, No. 2. (April 2007), pp. 345-355. by O. Gauthier, F. J. Lapointe posted to phylogenetic-network by akifumi on 2007-12-13 12:34:29 as
	How many genes should a systematist sample? Conflicting insights from a phylogenomic matrix characterized by replicated incongruence. [My Copy] Syst Biol, Vol. 56, No. 2. (April 2007), pp. 355-363. by J. Gatesy, R. DeSalle, N. Wahlberg posted to data-incongruence multilocus-data by akifumi on 2007-12-13 12:33:14 as
	Geological dates and molecular rates: rapid divergence of rivers and their biotas. [My Copy] Syst Biol, Vol. 56, No. 2. (April 2007), pp. 271-282. by J. M. Waters, D. L. Rowe, S. Apte, et al.T. M. King, G. P. Wallis, L. Anderson, R. J. Norris, D. Craw, C. P. Burridge posted to divergence-time-estimation molecular-dating by akifumi on 2007-12-13 12:30:30 as
	Accounting for gene rate heterogeneity in phylogenetic inference. [My Copy] Syst Biol, Vol. 56, No. 2. (April 2007), pp. 194-205. by R. B. Bevan, D. Bryant, B. F. Lang posted to among-gene-rate-variation phylogenetics by akifumi on 2007-12-13 12:28:22 as
	Alignment and topological accuracy of the direct optimization approach via POY and traditional phylogenetics via ClustalW + PAUP. [My Copy] Syst Biol*, Vol. 56, No. 2. (April 2007), pp. 182-193. by T. H. Ogden, M. S. Rosenberg posted to alignment clustalw direct-optimization parsimony paup poy by akifumi on 2007-12-13 12:26:16 as
	Patterns of relative species abundance in rainforests and coral reefs [My Copy] Nature, Vol. 450, No. 7166. (1 November 2007), pp. 45-49. by Igor Volkov, Jayanth R. Banavar, Stephen P. Hubbell, Amos Maritan posted to coral-reefs rain-forests relative-species-abundance by akifumi on 2007-11-01 11:30:30 as along with 3 people lshaw cactus Carlin
	Fair-Balance Paradox, Star-Tree Paradox and Bayesian Phylogenetics. [My Copy] Mol Biol Evol (7 May 2007) by Ziheng Yang posted to bayesian phylogenetics by akifumi on 2007-07-18 10:30:26 as along with 3 people aprasad cjeans ryanraaum
	PAML 4: phylogenetic analysis by maximum likelihood. [My Copy] Molecular biology and evolution, Vol. 24, No. 8. (1 August 2007), pp. 1586-1591. by Ziheng Yang posted to bayesian likelihood phylogenetics software by akifumi on 2007-07-01 20:26:24 as along with 13 people and 1 group ckenaley biomcgary michaelbarton dquest druvus operon hdopazo BioNica stajich ryanraaum RamuAnandakrishnan CharlesM Ema Mycology
	A Reversible Jump Method for Bayesian Phylogenetic Inference with a Nonhomogeneous Substitution Model [My Copy] Mol Biol Evol, Vol. 24, No. 6. (1 June 2007), pp. 1286-1299. by Vivek Gowri-Shankar, Magnus Rattray posted to bayesian mcmc phylogenetics reversible-jump-mcmc by akifumi on 2007-07-01 20:25:11 as
	kakusan: a computer program to automate the selection of a nucleotide substitution model and the configuration of a mixed model on multilocus data [My Copy] Molecular Ecology Notes, Vol. 0, No. 0. (0000), pp. ???-???. by Akifumi S. Tanabe posted to model-selection phylogenetics software by akifumi on 2007-05-29 17:54:46 as along with 1 person operon
	Molecular biogeography of Europe: Pleistocene cycles and postglacial trends [My Copy] Frontiers in Zoology, Vol. 4 (17 April 2007), 11. by Thomas Schmitt posted to biogeography climate-change by akifumi on 2007-04-30 22:44:48 as
	Detecting Non-Brownian Trait Evolution in Adaptive Radiations [My Copy] PLoS Biology, Vol. 4, No. 11. (1 November 2006), e373. by Robert P. Freckleton, Paul H. Harvey posted to character-evolution phylogenetics by akifumi on 2007-04-15 12:55:45 as along with 1 person and 1 group cmm FAB-lab
	Plio-Pleistocene climate evolution: trends and transitions in glacial cycle dynamics [My Copy] Quaternary Science Reviews, Vol. 26, No. 1-2. (January 2007), pp. 56-69. by Lorraine E. Lisiecki, Maureen E. Raymo posted to climate-change by akifumi on 2007-03-04 23:53:13 as
	The Heartbeat of the Oligocene Climate System [My Copy] Science, Vol. 314, No. 5807. (22 December 2006), pp. 1894-1898. by Heiko Palike, Richard D. Norris, Jens O. Herrle, et al.Paul A. Wilson, Helen K. Coxall, Caroline H. Lear, Nicholas J. Shackleton, Aradhna K. Tripati, Bridget S. Wade posted to climate-change by akifumi on 2007-03-04 23:49:29 as along with 1 person and 3 groups kmcolo cliamte_change instaar_graduate_students climate_change
	Modelled atmospheric temperatures and global sea levels over the past million years [My Copy] Nature, Vol. 437, No. 7055., pp. 125-128. by Richard Bintanja, Roderik S. W. van de Wal, Johannes Oerlemans posted to climate-change by akifumi on 2007-03-04 23:37:36 as
	A phyloclimatic study of Cyclamen [My Copy] BMC Evolutionary Biology, Vol. 6 (20 September 2006), 72. by Chris Yesson, Alastair Culham posted to climate-change molecular-dating phylogeography by akifumi on 2007-03-04 22:21:05 as
	Phyloclimatic Modeling: Combining Phylogenetics and Bioclimatic Modeling [My Copy] Syst Biol, Vol. 55, No. 5. (1 October 2006), pp. 785-802. by C. Yesson, A. Culham posted to character-evolution climate-change molecular-dating phylogeography by akifumi on 2007-03-04 22:17:06 as along with 1 person lizbiogen
	TimeTree: a public knowledge-base of divergence times among organisms. [My Copy] Bioinformatics (Oxford, England), Vol. 22, No. 23. (1 December 2006), pp. 2971-2972. by S. Blair Hedges, Joel Dudley, Sudhir Kumar posted to divergence-time-estimation phylogenetics by akifumi on 2007-02-13 04:50:23 as along with 1 person gpalidwor
	Efficient likelihood computations with nonreversible models of evolution. [My Copy] Syst Biol, Vol. 55, No. 5. (October 2006), pp. 756-768. by B. Boussau, M. Gouy posted to likelihood molecular-evolution by akifumi on 2007-02-13 04:49:27 as
	Methods for selecting fixed-effect models for heterogeneous codon evolution, with comments on their application to gene and genome data [My Copy] BMC Evolutionary Biology, Vol. 7, No. Suppl 1. (2007) by Le Bao, Hong Gu, Katherine Dunn, Joseph Bielawski posted to phylogenetics model-selection codon-substitution-model coding-sequence by akifumi on 2007-02-10 00:39:51 as
	Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model [My Copy] BMC Evolutionary Biology, Vol. 7, No. Suppl 1. (2007) by Nicolas Lartillot, Henner Brinkmann, Herve Philippe posted to phylogenetics heterotachy by akifumi on 2007-02-10 00:38:59 as along with 1 person aprasad
	SCaFoS: a tool for Selection, Concatenation and Fusion of Sequences for phylogenomics [My Copy] BMC Evolutionary Biology, Vol. 7, No. Suppl 1. (2007) by Beatrice Roure, Naiara R. Ezpeleta, Herve Philippe posted to phylogenetics data-manipulation by akifumi on 2007-02-10 00:36:03 as along with 7 people calderonv treangen natstreet druvus operon aprasad dmp
	Phylogeny and Biogeography of a Cosmopolitan Frog Radiation: Late Cretaceous Diversification Resulted in Continent-Scale Endemism in the Family Ranidae [My Copy] Systematic Biology, Vol. 55, No. 4. (August 2006), pp. 579-594. by Bossuyt, Franky, Brown, et al. Rafe, Hillis, David, Cannatella, David, Milinkovitch, Michel posted to gondwana biogeography by akifumi on 2007-01-11 10:52:06 as
	Late cretaceous vicariance in gondwanan amphibians. [My Copy] PLoS ONE, Vol. 1 (2006) by I. V. Bocxlaer, K. Roelants, S. D. Biju, J. Nagaraju, F. Bossuyt posted to phylogenetics molecular-dating gondwana dispersal-vicariance biogeography by akifumi on 2007-01-11 10:47:06 as
	Evolutionary Model Selection with a Genetic Algorithm: A Case Study Using Stem RNA [My Copy] Mol Biol Evol, Vol. 24, No. 1. (1 January 2007), pp. 159-170. by Kosakovsky, Frank V. Mannino, Michael B. Gravenor, Spencer V. Muse, Simon D. Frost posted to genetic-algorithm model-selection molecular-evolution by akifumi on 2006-12-16 21:52:48 as along with 1 person druvus
	Fossil Calibration of Molecular Divergence Infers a Moderate Mutation Rate and Recent Radiations for Pinus [My Copy] Mol Biol Evol, Vol. 24, No. 1. (1 January 2007), pp. 90-101. by Willyard Ann, John Syring, David S. Gernandt, Aaron Liston, Richard Cronn posted to fossil-calibration molecular-dating by akifumi on 2006-12-16 21:47:35 as
	Paleontological Evidence to Date the Tree of Life [My Copy] Mol Biol Evol, Vol. 24, No. 1. (1 January 2007), pp. 26-53. by Michael J. Benton, Philip C. Donoghue posted to molecular-dating review by akifumi on 2006-12-16 21:46:22 as along with 5 people aprasad Archaeogenetics maximilianh smbe2008 dandaman
	MtArt: A New Model of Amino Acid Replacement for Arthropoda [My Copy] Mol Biol Evol, Vol. 24, No. 1. (1 January 2007), pp. 1-5. by Federico Abascal, David Posada, Rafael Zardoya posted to aminoacid-substitution-model empirical-model evolution molecular by akifumi on 2006-12-16 15:08:44 as
	The molecular ecologist's guide to expressed sequence tags [My Copy] Molecular Ecology, Vol. 0, No. 0. (0000), pp. ???-???. by Amy Bouck, Todd Vision posted to est population-genetics by akifumi on 2006-11-30 09:04:37 as along with 2 people balicea TaqSys
	Shifting distributions and speciation: species divergence during rapid climate change [My Copy] Molecular Ecology, Vol. 0, No. 0. (0000), pp. ???-???. by Bryan C. Carstens, Knowles posted to climate-change evolution phylogeography speciation by akifumi on 2006-11-20 20:18:12 as
	autoinfer1.0: a computer program to infer biogeographical events automatically [My Copy] Molecular Ecology Notes, Vol. 6, No. 3. (September 2006), pp. 597-599. by Ai-Bing Zhang, Shengjiang Tan, Teiji Sota posted to nested-clade-analysis phylogeography population-genetics by akifumi on 2006-11-14 01:12:09 as along with 1 person TaqSys
	Molecular dating of phylogenetic trees: A brief review of current methods that estimate divergence times [My Copy] Diversity & Distributions, Vol. 12, No. 1. (January 2006), pp. 35-48. by Frank Rutschmann posted to molecular-dating phylogenetics by akifumi on 2006-10-31 00:15:44 as along with 1 person aprasad
	Searching for Convergence in Phylogenetic Markov Chain Monte Carlo [My Copy] Systematic Biology, Vol. 55, No. 4. (August 2006), pp. 553-565. by Beiko, Robert, Keith, et al. Jonathan, Harlow, Timothy, Ragan, Mark posted to homoplasy phylogenetics by akifumi on 2006-10-09 06:16:01 as along with 3 people treangen redelings rsandie
	Detecting the node-density artifact in phylogeny reconstruction. [My Copy] Syst Biol, Vol. 55, No. 4. (August 2006), pp. 637-643. by C. Venditti, A. Meade, M. Pagel posted to node-density phylogenetics taxon-sampling by akifumi on 2006-10-09 04:05:14 as
	Dating dispersal and radiation in the gymnosperm Gnetum (Gnetales)--clock calibration when outgroup relationships are uncertain. [My Copy] Syst Biol, Vol. 55, No. 4. (August 2006), pp. 610-622. by H. Won, S. S. Renner posted to evolution molecular-dating phylogenetics phylogeny by akifumi on 2006-10-09 03:55:30 as
	Phylogenetic estimation under codon models can be biased by codon usage heterogeneity [My Copy] Molecular Phylogenetics and Evolution, Vol. 40, No. 2. (August 2006), pp. 428-434. by Yuji Inagaki, Andrew J. Roger posted to coding-sequence codon-substitution-model evolution phylogenetics by akifumi on 2006-08-09 08:08:09 as along with 1 person and 1 group cmm FAB-lab
	An improved technique for isolating codominant compound microsatellite markers. [My Copy] J Plant Res (25 April 2006) by Chunlan L. Lian, Md A. Wadud, Qifang Geng, Kenichiro Shimatani, Taizo Hogetsu posted to microsatellite population-genetics by akifumi on 2006-06-16 09:56:29 as
	Using Coalescent Simulations to Test The Impact of Quaternary Climate Cycles on Divergence in an Alpine Plant-Insect Association [My Copy] Evolution, Vol. 60, No. 5. (May 2006), pp. 1004-1013. by Eric G. Dechaine, Andrew P. Martin posted to climate-change evolution speciation by akifumi on 2006-06-10 06:59:55 as
	Evolutionary rates, divergence dates, and the performance of mitochondrial genes in bayesian phylogenetic analysis. [My Copy] Syst Biol, Vol. 55, No. 2. (April 2006), pp. 289-300. by R. L. Mueller posted to bayesian mitochondrial-genes molecular-evolution phylogenetics by akifumi on 2006-05-31 12:05:12 as along with 2 people thoakley johannes_mueller
	Multiple Sequence Alignment Accuracy and Phylogenetic Inference [My Copy] Systematic Biology, Vol. 55, No. 2. (April 2006), pp. 314-328. by T. Ogdenw, Michael Rosenberg posted to alignment phylogenetics by akifumi on 2006-05-31 12:04:01 as along with 3 people druvus treangen aprasad
	A Review of: Biogeography: An Ecological and Evolutionary Approach, 7th edition [My Copy] Systematic Biology, Vol. 55, No. 2. (April 2006), pp. 361-363. by Isabel Sanmartin posted to biogeography review by akifumi on 2006-05-31 12:02:46 as

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phylogenetics	36
molecular-dating	11
climate-change	8
model-selection	7
molecular-evolution	6
biogeography	5
evolution	5
likelihood	5
bayesian	4
data-incongruence	4
heterotachy	4
phylogeny	4
phylogeography	4
review	4
coding-sequence	3
gondwana	3
multilocus-data	3
population-genetics	3
software	3
alignment	2
character-evolution	2
codon-substitution-model	2
data-partitioning	2
divergence-time-estimation	2
dnds-ratio	2
genetics	2
gene-tree	2
homoplasy	2
mcmc	2
parsimony	2
speciation	2
species-tree	2
taxon-sampling	2
test	2
3d	1
aminoacid	1
aminoacid-substitution-model	1
among-gene-rate-variation	1
asrv	1
base-frequencies	1
bayes-factor	1
carabid	1
cichlid	1
clustalw	1
coral-reefs	1
data-manipulation	1
deuterostome	1
direct-optimization	1
dispersal-vicariance	1
empirical-model	1
est	1
fossil-calibration	1
genetic-algorithm	1
ild-test	1
lepidoptera	1
lineage-sorting	1
malawi	1
maximum-likelihood	1
microsatellite	1
mitochondrial-genes	1
molecular	1
nested-clade-analysis	1
newzealand	1
node-density	1
paup	1
phylogenetic-diversity	1
phylogenetic-network	1
poy	1
primer	1
protein	1
rain-forests	1
relative-species-abundance	1
reversible-jump-mcmc	1
substitution-satulation	1
supertree	1
tree-search	1

akifumi's library 71 articles Export

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