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1998

Sequence Assembly Validation by Multiple Restriction Digest Fragment Coverage Analysis

9 years 19 days ago
Sequence Assembly Validation by Multiple Restriction Digest Fragment Coverage Analysis
DNA sequence analysis depends on the accurate assembly of fragment reads for the determination of a consensus sequence. This report examines the possibility of analyzing multiple, independent restriction digests as a method for testing the fidelity of sequence assembly. A dynamic programming algorithm to determine the maximum likelihood alignment of error prone electrophoretic mobility data to the expected fragment mobilities given the consensus sequence and restriction enzymes is derived and used to assess the likelihood of detecting rearrangements in genomic sequencing projects. The method is shown to reliably detect errors in sequence fragment assembly without the necessity of making reference to an overlying physical map. An html form-based interface is available at http://www.ibc.wustl.edu/services/validate.html
Eric C. Rouchka, David J. States
Added 01 Nov 2010
Updated 01 Nov 2010
Type Conference
Year 1998
Where ISMB
Authors Eric C. Rouchka, David J. States
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