Pro-Frame: similarity-based gene recognition in eukaryotic DNA sequences with errors (original) (raw)
Journal Article
,
State Scientific Center for Biotechnology NIIGenetika, Moscow, 113545, Russia
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State Scientific Center for Biotechnology NIIGenetika, Moscow, 113545, Russia
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State Scientific Center for Biotechnology NIIGenetika, Moscow, 113545, Russia
Search for other works by this author on:
Received:
22 September 1999
Revision received:
05 June 2000
Published:
01 January 2001
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Abstract
Summary: Performance of existing algorithms for similarity-based gene recognition in eukaryotes drops when the genomic DNA has been sequenced with errors. A modification of the spliced alignment algorithm allows for gene recognition in sequences with errors, in particular frameshifts. It tolerates up to 5% of sequencing errors without considerable drop of prediction reliability when a sufficiently close homologous protein is available (normalized evolutionary distance similarity score 50% or higher).
Availability: The program is free for academic users and available upon request at http://www.anchorgen.com
Contact: mgelfand@anchorgen.com
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© Oxford University Press 2001
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