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Results: 1 to 20 of 34

1.

A large-scale phylogeny of Amphibia including over 2800 species, and a revised classification of extant frogs, salamanders, and caecilians.

Pyron RA, Wiens JJ.

Mol Phylogenet Evol. 2011 Nov;61(2):543-83. doi: 10.1016/j.ympev.2011.06.012. Epub 2011 Jun 23.

PMID:
21723399
[PubMed - indexed for MEDLINE]
2.

Evolution of the hymenopteran megaradiation.

Heraty J, Ronquist F, Carpenter JM, Hawks D, Schulmeister S, Dowling AP, Murray D, Munro J, Wheeler WC, Schiff N, Sharkey M.

Mol Phylogenet Evol. 2011 Jul;60(1):73-88. doi: 10.1016/j.ympev.2011.04.003. Epub 2011 Apr 22.

PMID:
21540117
[PubMed - indexed for MEDLINE]
3.

Expressed sequence tags reveal Proctotrupomorpha (minus Chalcidoidea) as sister to Aculeata (Hymenoptera: Insecta).

Sharanowski BJ, Robbertse B, Walker J, Voss SR, Yoder R, Spatafora J, Sharkey MJ.

Mol Phylogenet Evol. 2010 Oct;57(1):101-12. doi: 10.1016/j.ympev.2010.07.006. Epub 2010 Jul 14.

PMID:
20637293
[PubMed - indexed for MEDLINE]
4.

Sparse supermatrices for phylogenetic inference: taxonomy, alignment, rogue taxa, and the phylogeny of living turtles.

Thomson RC, Shaffer HB.

Syst Biol. 2010 Jan;59(1):42-58. doi: 10.1093/sysbio/syp075. Epub 2009 Nov 11.

PMID:
20525619
[PubMed - indexed for MEDLINE]
5.

A Monte Carlo approach successfully identifies randomness in multiple sequence alignments: a more objective means of data exclusion.

Misof B, Misof K.

Syst Biol. 2009 Feb;58(1):21-34. doi: 10.1093/sysbio/syp006. Epub 2009 May 20.

PMID:
20525566
[PubMed - indexed for MEDLINE]
6.

The origins of species richness in the Hymenoptera: insights from a family-level supertree.

Davis RB, Baldauf SL, Mayhew PJ.

BMC Evol Biol. 2010 Apr 27;10:109. doi: 10.1186/1471-2148-10-109.

PMID:
20423463
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

How many bootstrap replicates are necessary?

Pattengale ND, Alipour M, Bininda-Emonds OR, Moret BM, Stamatakis A.

J Comput Biol. 2010 Mar;17(3):337-54. doi: 10.1089/cmb.2009.0179.

PMID:
20377449
[PubMed - indexed for MEDLINE]
8.

Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees.

Kück P, Meusemann K, Dambach J, Thormann B, von Reumont BM, Wägele JW, Misof B.

Front Zool. 2010 Mar 31;7:10. doi: 10.1186/1742-9994-7-10.

PMID:
20356385
[PubMed]
Free PMC Article
9.

Many hexapod groups originated earlier and withstood extinction events better than previously realized: inferences from supertrees.

Davis RB, Baldauf SL, Mayhew PJ.

Proc Biol Sci. 2010 May 22;277(1687):1597-606. doi: 10.1098/rspb.2009.2299. Epub 2010 Feb 3.

PMID:
20129983
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Functional and evolutionary insights from the genomes of three parasitoid Nasonia species.

Werren JH, Richards S, Desjardins CA, Niehuis O, Gadau J, Colbourne JK; Nasonia Genome Working Group, Werren JH, Richards S, Desjardins CA, Niehuis O, Gadau J, Colbourne JK, Beukeboom LW, Desplan C, Elsik CG, Grimmelikhuijzen CJ, Kitts P, Lynch JA, Murphy T, Oliveira DC, Smith CD, van de Zande L, Worley KC, Zdobnov EM, Aerts M, Albert S, Anaya VH, Anzola JM, Barchuk AR, Behura SK, Bera AN, Berenbaum MR, Bertossa RC, Bitondi MM, Bordenstein SR, Bork P, Bornberg-Bauer E, Brunain M, Cazzamali G, Chaboub L, Chacko J, Chavez D, Childers CP, Choi JH, Clark ME, Claudianos C, Clinton RA, Cree AG, Cristino AS, Dang PM, Darby AC, de Graaf DC, Devreese B, Dinh HH, Edwards R, Elango N, Elhaik E, Ermolaeva O, Evans JD, Foret S, Fowler GR, Gerlach D, Gibson JD, Gilbert DG, Graur D, Gründer S, Hagen DE, Han Y, Hauser F, Hultmark D, Hunter HC 4th, Hurst GD, Jhangian SN, Jiang H, Johnson RM, Jones AK, Junier T, Kadowaki T, Kamping A, Kapustin Y, Kechavarzi B, Kim J, Kim J, Kiryutin B, Koevoets T, Kovar CL, Kriventseva EV, Kucharski R, Lee H, Lee SL, Lees K, Lewis LR, Loehlin DW, Logsdon JM Jr, Lopez JA, Lozado RJ, Maglott D, Maleszka R, Mayampurath A, Mazur DJ, McClure MA, Moore AD, Morgan MB, Muller J, Munoz-Torres MC, Muzny DM, Nazareth LV, Neupert S, Nguyen NB, Nunes FM, Oakeshott JG, Okwuonu GO, Pannebakker BA, Pejaver VR, Peng Z, Pratt SC, Predel R, Pu LL, Ranson H, Raychoudhury R, Rechtsteiner A, Reese JT, Reid JG, Riddle M, Robertson HM, Romero-Severson J, Rosenberg M, Sackton TB, Sattelle DB, Schlüns H, Schmitt T, Schneider M, Schüler A, Schurko AM, Shuker DM, Simões ZL, Sinha S, Smith Z, Solovyev V, Souvorov A, Springauf A, Stafflinger E, Stage DE, Stanke M, Tanaka Y, Telschow A, Trent C, Vattathil S, Verhulst EC, Viljakainen L, Wanner KW, Waterhouse RM, Whitfield JB, Wilkes TE, Williamson M, Willis JH, Wolschin F, Wyder S, Yamada T, Yi SV, Zecher CN, Zhang L, Gibbs RA.

Science. 2010 Jan 15;327(5963):343-8. doi: 10.1126/science.1178028. Erratum in: Science. 2010 Mar 26;327(5973):1577.

PMID:
20075255
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

HaMStR: profile hidden markov model based search for orthologs in ESTs.

Ebersberger I, Strauss S, von Haeseler A.

BMC Evol Biol. 2009 Jul 8;9:157. doi: 10.1186/1471-2148-9-157.

PMID:
19586527
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Phylogenetic approaches for the analysis of mitochondrial genome sequence data in the Hymenoptera--a lineage with both rapidly and slowly evolving mitochondrial genomes.

Dowton M, Cameron SL, Austin AD, Whiting MF.

Mol Phylogenet Evol. 2009 Aug;52(2):512-9. doi: 10.1016/j.ympev.2009.04.001. Epub 2009 Apr 11.

PMID:
19364540
[PubMed - indexed for MEDLINE]
13.

Mega-phylogeny approach for comparative biology: an alternative to supertree and supermatrix approaches.

Smith SA, Beaulieu JM, Donoghue MJ.

BMC Evol Biol. 2009 Feb 11;9:37. doi: 10.1186/1471-2148-9-37.

PMID:
19210768
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2009 Jan;37(Database issue):D26-31. doi: 10.1093/nar/gkn723. Epub 2008 Oct 21.

PMID:
18940867
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

A rapid bootstrap algorithm for the RAxML Web servers.

Stamatakis A, Hoover P, Rougemont J.

Syst Biol. 2008 Oct;57(5):758-71. doi: 10.1080/10635150802429642.

PMID:
18853362
[PubMed - indexed for MEDLINE]
16.

Phylogenetic signal in the eukaryotic tree of life.

Sanderson MJ.

Science. 2008 Jul 4;321(5885):121-3. doi: 10.1126/science.1154449.

PMID:
18599787
[PubMed - indexed for MEDLINE]
Free Article
17.

The PhyLoTA Browser: processing GenBank for molecular phylogenetics research.

Sanderson MJ, Boss D, Chen D, Cranston KA, Wehe A.

Syst Biol. 2008 Jun;57(3):335-46. doi: 10.1080/10635150802158688.

PMID:
18570030
[PubMed - indexed for MEDLINE]
18.

Recent developments in the MAFFT multiple sequence alignment program.

Katoh K, Toh H.

Brief Bioinform. 2008 Jul;9(4):286-98. doi: 10.1093/bib/bbn013. Epub 2008 Mar 27.

PMID:
18372315
[PubMed - indexed for MEDLINE]
Free Article
19.

A protocol for large-scale rRNA sequence analysis: towards a detailed phylogeny of Coleoptera.

Hunt T, Vogler AP.

Mol Phylogenet Evol. 2008 Apr;47(1):289-301. doi: 10.1016/j.ympev.2007.11.029. Epub 2007 Dec 7.

PMID:
18191591
[PubMed - indexed for MEDLINE]
20.

Dendroscope: An interactive viewer for large phylogenetic trees.

Huson DH, Richter DC, Rausch C, Dezulian T, Franz M, Rupp R.

BMC Bioinformatics. 2007 Nov 22;8:460.

PMID:
18034891
[PubMed - indexed for MEDLINE]
Free PMC Article

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