Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W553-6.

POWER: PhylOgenetic WEb Repeater--an integrated and user-optimized framework for biomolecular phylogenetic analysis.

Lin CY, Lin FK, Lin CH, Lai LW, Hsu HJ, Chen SH, Hsiung CA.

Source

Division of Biostatistics and Bioinformatics, National Health Research Institutes, 35 Keyan Road, Zhunan Town, Miaoli County 350, Taiwan. cylin@nhri.org.tw

Abstract

POWER, the PhylOgenetic WEb Repeater, is a web-based service designed to perform user-friendly pipeline phylogenetic analysis. POWER uses an open-source LAMP structure and infers genetic distances and phylogenetic relationships using well-established algorithms (ClustalW and PHYLIP). POWER incorporates a novel tree builder based on the GD library to generate a high-quality tree topology according to the calculated result. POWER accepts either raw sequences in FASTA format or user-uploaded alignment output files. Through a user-friendly web interface, users can sketch a tree effortlessly in multiple steps. After a tree has been generated, users can freely set and modify parameters, select tree building algorithms, refine sequence alignments or edit the tree topology. All the information related to input sequences and the processing history is logged and downloadable for the user's reference. Furthermore, iterative tree construction can be performed by adding sequences to, or removing them from, a previously submitted job. POWER is accessible at http://power.nhri.org.tw.

PMID:: 15980533; [PubMed - indexed for MEDLINE]
PMCID:: PMC1160254

Free PMC Article

Images from this publication.See all images (1) Free text

Publication Types, MeSH Terms

Publication Types

Research Support, Non-U.S. Gov't

MeSH Terms

LinkOut - more resources

Full Text Sources

Other Literature Sources

Molecular Biology Databases

POWER - Bioinformatics.ca Links Directory

Supplemental Content

Save items

Related citations in PubMed

On the quality of tree-based protein classification. [Bioinformatics. 2005]
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.
PALM: a paralleled and integrated framework for phylogenetic inference with automatic likelihood model selectors. [PLoS One. 2009]
PALM: a paralleled and integrated framework for phylogenetic inference with automatic likelihood model selectors.
Chen SH, Su SY, Lo CZ, Chen KH, Huang TJ, Kuo BH, Lin CY. PLoS One. 2009 Dec 7; 4(12):e8116. Epub 2009 Dec 7.
PhyloGena--a user-friendly system for automated phylogenetic annotation of unknown sequences. [Bioinformatics. 2007]
PhyloGena--a user-friendly system for automated phylogenetic annotation of unknown sequences.
Hanekamp K, Bohnebeck U, Beszteri B, Valentin K. Bioinformatics. 2007 Apr 1; 23(7):793-801. Epub 2007 Mar 1.
Review Phylogenetic inferences from molecular sequences: review and critique. [Theor Popul Biol. 2001]
Review Phylogenetic inferences from molecular sequences: review and critique.
Brocchieri L. Theor Popul Biol. 2001 Feb; 59(1):27-40.
Review DNA surveillance: web-based molecular identification of whales, dolphins, and porpoises. [J Hered. 2003]
Review DNA surveillance: web-based molecular identification of whales, dolphins, and porpoises.
Ross HA, Lento GM, Dalebout ML, Goode M, Ewing G, McLaren P, Rodrigo AG, Lavery S, Baker CS. J Hered. 2003 Mar-Apr; 94(2):111-4.

See reviews... See all...

Cited by 4 PubMed Central articles

PhyleasProg: a user-oriented web server for wide evolutionary analyses. [Nucleic Acids Res. 2011]
PhyleasProg: a user-oriented web server for wide evolutionary analyses.
Busset J, Cabau C, Meslin C, Pascal G. Nucleic Acids Res. 2011 Jul; 39(Web Server issue):W479-85. Epub 2011 Apr 29.
A reference guide for tree analysis and visualization. [BioData Min. 2010]
A reference guide for tree analysis and visualization.
Pavlopoulos GA, Soldatos TG, Barbosa-Silva A, Schneider R. BioData Min. 2010 Feb 22; 3(1):1. Epub 2010 Feb 22.
PALM: a paralleled and integrated framework for phylogenetic inference with automatic likelihood model selectors. [PLoS One. 2009]
PALM: a paralleled and integrated framework for phylogenetic inference with automatic likelihood model selectors.
Chen SH, Su SY, Lo CZ, Chen KH, Huang TJ, Kuo BH, Lin CY. PLoS One. 2009 Dec 7; 4(12):e8116. Epub 2009 Dec 7.

See all...

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
References for this PMC Article
Citation referenced in PubMed article. Only valid for PubMed citations that are also in PMC.
Free in PMC
Free full text articles in PMC
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

POWER: PhylOgenetic WEb Repeater--an integrated and user-optimized framework for...
POWER: PhylOgenetic WEb Repeater--an integrated and user-optimized framework for biomolecular phylogenetic analysis.
Nucleic Acids Res. 2005 Jul 1 ;33(Web Server issue):W553-6.

PubMed
PriFi: using a multiple alignment of related sequences to find primers for ampli...
PriFi: using a multiple alignment of related sequences to find primers for amplification of homologs.
Nucleic Acids Res. 2005 Jul 1 ;33(Web Server issue):W516-20.

PubMed
MICheck: a web tool for fast checking of syntactic annotations of bacterial geno...
MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes.
Nucleic Acids Res. 2005 Jul 1 ;33(Web Server issue):W471-9.

PubMed
BABELOMICS: a suite of web tools for functional annotation and analysis of group...
BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments.
Nucleic Acids Res. 2005 Jul 1 ;33(Web Server issue):W460-4.

PubMed
BASys: a web server for automated bacterial genome annotation.
BASys: a web server for automated bacterial genome annotation.
Nucleic Acids Res. 2005 Jul 1 ;33(Web Server issue):W455-9.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Result Filters

Display Settings:

Send to: