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HandWiki. Clustal. Encyclopedia. Available online: https://encyclopedia.pub/entry/28301 (accessed on 22 September 2026).
HandWiki. Clustal. Encyclopedia. Available at: https://encyclopedia.pub/entry/28301. Accessed September 22, 2026.
HandWiki. "Clustal" Encyclopedia, https://encyclopedia.pub/entry/28301 (accessed September 22, 2026).
HandWiki. (2022, October 06). Clustal. In Encyclopedia. https://encyclopedia.pub/entry/28301
HandWiki. "Clustal." Encyclopedia. Web. 06 October, 2022.
Clustal
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The content is sourced from: https://handwiki.org/wiki/Software:Clustal

Clustal is a series of widely used computer programs used in bioinformatics for multiple sequence alignment. There have been many versions of Clustal over the development of the algorithm that are listed below. The analysis of each tool and its algorithm are also detailed in their respective categories. Available operating systems listed in the sidebar are a combination of the software availability and may not be supported for every current version of the Clustal tools. Clustal Omega has the widest variety of operating systems out of all the Clustal tools.

clustal bioinformatics algorithm

References

  1. "CLUSTAL: a package for performing multiple sequence alignment on a microcomputer". Gene 73 (1): 237–44. December 1988. doi:10.1016/0378-1119(88)90330-7. PMID 3243435.  https://dx.doi.org/10.1016%2F0378-1119%2888%2990330-7
  2. "CLUSTAL V: improved software for multiple sequence alignment". Computer Applications in the Biosciences 8 (2): 189–91. April 1992. doi:10.1093/bioinformatics/8.2.189. PMID 1591615.  https://dx.doi.org/10.1093%2Fbioinformatics%2F8.2.189
  3. "The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools". Nucleic Acids Research 25 (24): 4876–82. December 1997. doi:10.1093/nar/25.24.4876. PMID 9396791.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=147148
  4. Sievers, Fabian; Higgins, Desmond G. (2014-01-01). Russell, David J. ed (in en). Multiple Sequence Alignment Methods. Methods in Molecular Biology. 1079. Humana Press. pp. 105–116. doi:10.1007/978-1-62703-646-7_6. ISBN 9781627036450.  https://dx.doi.org/10.1007%2F978-1-62703-646-7_6
  5. Sievers, Fabian; Higgins, Desmond G. (2002-01-01) (in en). Clustal Omega. 48. John Wiley & Sons, Inc.. 3.13.1–16. doi:10.1002/0471250953.bi0313s48. ISBN 9780471250951.  https://dx.doi.org/10.1002%2F0471250953.bi0313s48
  6. Dineen, David. "Clustal W and Clustal X Multiple Sequence Alignment". http://www.clustal.org/clustal2/. 
  7. "The top 100 papers". Nature 514 (7524): 550–3. October 2014. doi:10.1038/514550a. PMID 25355343. Bibcode: 2014Natur.514..550V.  https://dx.doi.org/10.1038%2F514550a
  8. Des Higgins, presentation at the SMBE 2012 conference in Dublin.
  9. "CLUSTAL: a package for performing multiple sequence alignment on a microcomputer". Gene 73 (1): 237–44. December 1988. doi:10.1016/0378-1119(88)90330-7. PMID 3243435.  https://dx.doi.org/10.1016%2F0378-1119%2888%2990330-7
  10. "Fast and sensitive multiple sequence alignments on a microcomputer". Computer Applications in the Biosciences 5 (2): 151–3. April 1989. doi:10.1093/bioinformatics/5.2.151. PMID 2720464.  https://dx.doi.org/10.1093%2Fbioinformatics%2F5.2.151
  11. "CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice". Nucleic Acids Research 22 (22): 4673–80. November 1994. doi:10.1093/nar/22.22.4673. PMID 7984417.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=308517
  12. "CLUSTAL W Algorithm". https://www-bimas.cit.nih.gov/clustalw/clustalw.html. 
  13. https://www.aua.gr/~eliop/mathimata/molevol/Askhsh1/clustalv.htm
  14. "About CLUSTALW". https://www.megasoftware.net/web_help_7/hc_clustalw.htm. 
  15. Larkin, M.A.; Blackshields, G.; Brown, N.P.; Chenna, R.; McGettigan, P.A.; McWilliam, H.; Valentin, F.; Wallace, I.M. et al. (2007-09-10). "Clustal W and Clustal X version 2.0" (in en). Bioinformatics 23 (21): 2947–2948. doi:10.1093/bioinformatics/btm404. ISSN 1367-4803. PMID 17846036.  https://dx.doi.org/10.1093%2Fbioinformatics%2Fbtm404
  16. "Assessing the efficiency of multiple sequence alignment programs". Algorithms for Molecular Biology 9 (1): 4. March 2014. doi:10.1186/1748-7188-9-4. PMID 24602402.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=4015676
  17. EMBL-EBI. "Clustal Omega < Multiple Sequence Alignment < EMBL-EBI" (in en). https://www.ebi.ac.uk/Tools/msa/clustalo/. 
  18. Dineen, David. "Clustal Omega, ClustalW and ClustalX Multiple Sequence Alignment". http://www.clustal.org/. 
  19. "Sequence embedding for fast construction of guide trees for multiple sequence alignment". Algorithms for Molecular Biology 5: 21. May 2010. doi:10.1186/1748-7188-5-21. PMID 20470396.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2893182
  20. "Profile HMM Analysis". http://www.biology.wustl.edu/gcg/hmmanalysis.html. 
  21. "Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega". Molecular Systems Biology 7 (1): 539. October 2011. doi:10.1038/msb.2011.75. PMID 21988835.  http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=3261699
  22. Daugelaite, Jurate; O' Driscoll, Aisling; Sleator, Roy D. (2013). "An Overview of Multiple Sequence Alignments and Cloud Computing in Bioinformatics" (in en). ISRN Biomathematics 2013: 1–14. doi:10.1155/2013/615630. ISSN 2090-7702.  https://dx.doi.org/10.1155%2F2013%2F615630
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