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galaxie - CGI scrip...
galaxie - CGI scripts for sequence identification through automated phylogenetic analysis
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- Nilsson, R. Henrik, 1976 (författare)
- Gothenburg University,Göteborgs universitet,Botaniska institutionen,Botanical Institute
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- Larsson, Karl-Henrik, 1948 (författare)
- Gothenburg University,Göteborgs universitet,Botaniska institutionen,Botanical Institute
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Ursing, Björn M. (författare)
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(creator_code:org_t)
- 2004-02-19
- 2004
- Engelska.
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Ingår i: Bioinformatics. - : Oxford University Press (OUP). - 1367-4803 .- 1367-4811. ; 20:9, s. 1447-1452
- Relaterad länk:
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https://academic.oup...
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https://gup.ub.gu.se...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Motivation: The prevalent use of similarity searches like BLAST to identify sequences and species implicitly assumes the reference database to be of extensive sequence sampling. This is often not the case, restraining the correctness of the outcome as a basis for sequence identification. Phylogenetic inference outperforms similarity searches in retrieving correct phylogenies and consequently sequence identities, and a project was initiated to design a freely available script package for sequence identification through automated Web-based phylogenetic analysis. Results: Three CGI scripts were designed to facilitate qualified sequence identification from a Web interface. Query sequences are aligned to pre-made alignments or to alignments made by ClustalW with entries retrieved from a BLAST search. The subsequent phylogenetic analysis is based on the PHYLIP package for inferring neighbor-joining and parsimony trees. The scripts are highly configurable.
Ämnesord
- NATURVETENSKAP -- Biologi -- Annan biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Other Biological Topics (hsv//eng)
Nyckelord
- COMPLEX
- BLAST
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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