Nucleic Acids Res. 2003 Jul 1;31(13):3497-500.

Multiple sequence alignment with the Clustal series of programs.

Chenna R, Sugawara H, Koike T, Lopez R, Gibson TJ, Higgins DG, Thompson JD.

Source

European Molecular Biology Laboratory, Meyerhofstrasse 1, D-69117 Heidelberg, Germany.

Abstract

The Clustal series of programs are widely used in molecular biology for the multiple alignment of both nucleic acid and protein sequences and for preparing phylogenetic trees. The popularity of the programs depends on a number of factors, including not only the accuracy of the results, but also the robustness, portability and user-friendliness of the programs. New features include NEXUS and FASTA format output, printing range numbers and faster tree calculation. Although, Clustal was originally developed to run on a local computer, numerous Web servers have been set up, notably at the EBI (European Bioinformatics Institute) (http://www.ebi.ac.uk/clustalw/).

PMID:: 12824352; [PubMed - indexed for MEDLINE]
PMCID: PMC168907

Free PMC Article

Images from this publication.See all images (2) Free text

Publication Types, MeSH Terms, Substances

Publication Types

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

MeSH Terms

Substances

Nucleic Acids

LinkOut - more resources

Full Text Sources

Molecular Biology Databases

Supplemental Content

Related citations

Clustal W and Clustal X version 2.0. [Bioinformatics. 2007]
Clustal W and Clustal X version 2.0.
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, et al. Bioinformatics. 2007 Nov 1; 23(21):2947-8. Epub 2007 Sep 10.
CLOURE: Clustal Output Reformatter, a program for reformatting ClustalX/ClustalW outputs for SNP analysis and molecular systematics. [Nucleic Acids Res. 2003]
CLOURE: Clustal Output Reformatter, a program for reformatting ClustalX/ClustalW outputs for SNP analysis and molecular systematics.
Kohli DK, Bachhawat AK. Nucleic Acids Res. 2003 Jul 1; 31(13):3501-2.
POWER: PhylOgenetic WEb Repeater--an integrated and user-optimized framework for biomolecular phylogenetic analysis. [Nucleic Acids Res. 2005]
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. Nucleic Acids Res. 2005 Jul 1; 33(Web Server issue):W553-6.
Review Multiple sequence alignment. [Curr Opin Struct Biol. 2006]
Review Multiple sequence alignment.
Edgar RC, Batzoglou S. Curr Opin Struct Biol. 2006 Jun; 16(3):368-73. Epub 2006 May 5.
Review Bioinformatics in protein analysis. [EXS. 2000]
Review Bioinformatics in protein analysis.
Persson B. EXS. 2000; 88:215-31.

See reviews... See all...

Cited by over 100 PubMed Central articles

A Deeply Branching Thermophilic Bacterium with an Ancient Acetyl-CoA Pathway Dominates a Subsurface Ecosystem. [PLoS One. 2012]
A Deeply Branching Thermophilic Bacterium with an Ancient Acetyl-CoA Pathway Dominates a Subsurface Ecosystem.
Takami H, Noguchi H, Takaki Y, Uchiyama I, Toyoda A, Nishi S, Chee GJ, Arai W, Nunoura T, Itoh T, et al. PLoS One. 2012; 7(1):e30559. Epub 2012 Jan 27.
A "Genome-to-Lead" Approach for Insecticide Discovery: Pharmacological Characterization and Screening of Aedes aegypti D(1)-like Dopamine Receptors. [PLoS Negl Trop Dis. 2012]
A "Genome-to-Lead" Approach for Insecticide Discovery: Pharmacological Characterization and Screening of Aedes aegypti D(1)-like Dopamine Receptors.
Meyer JM, Ejendal KF, Avramova LV, Garland-Kuntz EE, Giraldo-Calderón GI, Brust TF, Watts VJ, Hill CA. PLoS Negl Trop Dis. 2012 Jan; 6(1):e1478. Epub 2012 Jan 24.
Genomic and SNP Analyses Demonstrate a Distant Separation of the Hospital and Community-Associated Clades of Enterococcus faecium. [PLoS One. 2012]
Genomic and SNP Analyses Demonstrate a Distant Separation of the Hospital and Community-Associated Clades of Enterococcus faecium.
Galloway-Peña J, Roh JH, Latorre M, Qin X, Murray BE. PLoS One. 2012; 7(1):e30187. Epub 2012 Jan 26.

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.
Gene
Gene records that cite the current articles. Citations in Gene are added manually by NCBI or imported from outside public resources.
References for this PMC Article
Citation referenced in PubMed article. Only valid for PubMed citations that are also in PMC.
Taxonomy via GenBank
Taxonomy records associated with the current articles through taxonomic information on related molecular database records (Nucleotide, Protein, Gene, SNP, Structure).
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.
Cited in Books
NCBI Bookshelf books that cite the current articles.

Recent activity

Clear Turn Off Turn On

Multiple sequence alignment with the Clustal series of programs.
Multiple sequence alignment with the Clustal series of programs.
Nucleic Acids Res. 2003 Jul 1 ;31(13):3497-500.

PubMed
The Speckled Monster: A Historical Tale of Battling Smallpox
The Speckled Monster: A Historical Tale of Battling Smallpox
MedGenMed. 2004; 6(2): 44.

PMC
The benefits and risks of testosterone replacement therapy: a review.
The benefits and risks of testosterone replacement therapy: a review.
Ther Clin Risk Manag. 2009 Jun ;5(3):427-48. Epub 2009 Jun 22 .

PubMed
Hypogonadism and androgen replacement therapy in elderly men.
Hypogonadism and androgen replacement therapy in elderly men.
Am J Med. 2001 May ;110(7):563-72.

PubMed
Nicotinic acid/niacinamide and the skin.
Nicotinic acid/niacinamide and the skin.
J Cosmet Dermatol. 2004 Apr ;3(2):88-93.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Display Settings:

Send to: