Multiple Sequence Alignment Using ClustalW and ClustalX

Keywords

Computer science, Multiple sequence alignment, Unix, Sequence alignment, Graphical user interface

References

• Flexible sequence similarity searching with the FASTA3 program package.William R. Pearson — 2000
• Using CLUSTAL for multiple sequence alignments.Desmond G. Higgins, Julie Thompson, Toby J. Gibson — 1996
• Of urfs and orfs : a primer on how to analyze devised amino acid sequencesRussell F. Doolittle — 1986
• Profile analysis: detection of distantly related proteins.Michael Gribskov, A. McLachlan, David Eisenberg — 1987
• Multiple sequence alignment with Clustal X.François Jeanmougin, Julie Thompson, Manolo Gouy — 1998
• Rapid similarity searches of nucleic acid and protein data banks.W. John Wilbur, David J. Lipman — 1983
• Improved Sensitivity of Nucleic Acid Database Searches Using Application-Specific Scoring MatricesDavid States, Warren Gish, Stephen F. Altschul — 1991
• CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAPJoseph Felsenstein — 1985
• An improved algorithm for matching biological sequences.Osamu Gotoh — 1982
• A general method applicable to the search for similarities in the amino acid sequence of two proteins.Saul B. Needleman, Christian D. Wunsch — 1970
• The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.Julie Thompson — 1997
• The neighbor-joining method: a new method for reconstructing phylogenetic trees.Naruya Saitou, M Nei — 1987
• Twilight zone of protein sequence alignments.Burkhard Rost — 1999
• Fast and sensitive multiple sequence alignments on a microcomputerDesmond G. Higgins, Paul M. Sharp — 1989
• CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.Julie Thompson, Desmond G. Higgins, Toby J. Gibson — 1994
• Optimal alignments in linear spaceEugene W. Myers, Webb Miller — 1988
• A comprehensive comparison of multiple sequence alignment programsJulie Thompson, Frédéric Plewniak, Olivier Poch — 1999
• CLUSTAL V: improved software for multiple sequence alignmentDesmond G. Higgins, Alan J. Bleasby, Rainer Fuchs — 1992
• CLUSTAL: a package for performing multiple sequence alignment on a microcomputerDesmond G. Higgins, Paul M. Sharp — 1988

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