Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 108

1.

LSHPlace: fast phylogenetic placement using locality-sensitive hashing.

Brown DG, Truszkowski J.

Pac Symp Biocomput. 2013:310-9.

PMID:
23424136
[PubMed - indexed for MEDLINE]
Free Article
2.

SEPP: SATé-enabled phylogenetic placement.

Mirarab S, Nguyen N, Warnow T.

Pac Symp Biocomput. 2012:247-58.

PMID:
22174280
[PubMed - indexed for MEDLINE]
Free Article
3.

MetaDomain: a profile HMM-based protein domain classification tool for short sequences.

Zhang Y, Sun Y.

Pac Symp Biocomput. 2012:271-82.

PMID:
22174282
[PubMed - indexed for MEDLINE]
Free Article
4.

pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree.

Matsen FA, Kodner RB, Armbrust EV.

BMC Bioinformatics. 2010 Oct 30;11:538. doi: 10.1186/1471-2105-11-538.

PMID:
21034504
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

On the quality of tree-based protein classification.

Lazareva-Ulitsky B, Diemer K, Thomas PD.

Bioinformatics. 2005 May 1;21(9):1876-90. Epub 2005 Jan 12.

PMID:
15647305
[PubMed - indexed for MEDLINE]
Free Article
6.

Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?

Hartmann S, Vision TJ.

BMC Evol Biol. 2008 Mar 26;8:95. doi: 10.1186/1471-2148-8-95.

PMID:
18366758
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

New approaches to phylogenetic tree search and their application to large numbers of protein alignments.

Whelan S.

Syst Biol. 2007 Oct;56(5):727-40.

PMID:
17849327
[PubMed - indexed for MEDLINE]
8.

SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees.

Liu K, Warnow TJ, Holder MT, Nelesen SM, Yu J, Stamatakis AP, Linder CR.

Syst Biol. 2012 Jan;61(1):90-106. doi: 10.1093/sysbio/syr095. Epub 2011 Dec 1.

PMID:
22139466
[PubMed - indexed for MEDLINE]
9.

Bayesian coestimation of phylogeny and sequence alignment.

Lunter G, Miklós I, Drummond A, Jensen JL, Hein J.

BMC Bioinformatics. 2005 Apr 1;6:83.

PMID:
15804354
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analyses.

Nelesen S, Liu K, Zhao D, Linder CR, Warnow T.

Pac Symp Biocomput. 2008:25-36.

PMID:
18229674
[PubMed - indexed for MEDLINE]
Free Article
11.

Accurate extension of multiple sequence alignments using a phylogeny-aware graph algorithm.

Löytynoja A, Vilella AJ, Goldman N.

Bioinformatics. 2012 Jul 1;28(13):1684-91. doi: 10.1093/bioinformatics/bts198. Epub 2012 Apr 23.

PMID:
22531217
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Pash 2.0: scaleable sequence anchoring for next-generation sequencing technologies.

Coarfa C, Milosavljevic A.

Pac Symp Biocomput. 2008:102-13.

PMID:
18229679
[PubMed - indexed for MEDLINE]
Free Article
13.

Ancestral sequence alignment under optimal conditions.

Hudek AK, Brown DG.

BMC Bioinformatics. 2005 Nov 17;6:273.

PMID:
16293191
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

The tree alignment problem.

Varón A, Wheeler WC.

BMC Bioinformatics. 2012 Nov 9;13:293. doi: 10.1186/1471-2105-13-293.

PMID:
23140486
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Phylogenetic analysis with the iPlant discovery environment.

Matasci N, McKay S.

Curr Protoc Bioinformatics. 2013 Jun;Chapter 6:Unit6.13. doi: 10.1002/0471250953.bi0613s42.

PMID:
23749754
[PubMed - indexed for MEDLINE]
16.

Toward extracting all phylogenetic information from matrices of evolutionary distances.

Roch S.

Science. 2010 Mar 12;327(5971):1376-9. doi: 10.1126/science.1182300.

PMID:
20223986
[PubMed - indexed for MEDLINE]
Free Article
17.

Performance, accuracy, and Web server for evolutionary placement of short sequence reads under maximum likelihood.

Berger SA, Krompass D, Stamatakis A.

Syst Biol. 2011 May;60(3):291-302. doi: 10.1093/sysbio/syr010. Epub 2011 Mar 23.

PMID:
21436105
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Probabilistic phylogenetic inference with insertions and deletions.

Rivas E, Eddy SR.

PLoS Comput Biol. 2008 Sep 19;4(9):e1000172. doi: 10.1371/journal.pcbi.1000172.

PMID:
18787703
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Parametric analysis of alignment and phylogenetic uncertainty.

Malaspinas AS, Eriksson N, Huggins P.

Bull Math Biol. 2011 Apr;73(4):795-810. doi: 10.1007/s11538-010-9610-8. Epub 2011 Mar 16.

PMID:
21409513
[PubMed - indexed for MEDLINE]
20.

MultiSeq: unifying sequence and structure data for evolutionary analysis.

Roberts E, Eargle J, Wright D, Luthey-Schulten Z.

BMC Bioinformatics. 2006 Aug 16;7:382.

PMID:
16914055
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk