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PMID: 15359419 Published · ppublish English Comparative Study Evaluation Study Journal Article Validation Study

Patternhunter II: highly sensitive and fast homology search.

Journal of bioinformatics and computational biology ·Vol. 2 ·No. 3 ·2004-09-00 ·Pages 417-39

Li M, Ma B, Kisman D, Tromp J

Abstract

Extending the single optimized spaced seed of PatternHunter(20) to multiple ones, PatternHunter II simultaneously remedies the lack of sensitivity of Blastn and the lack of speed of Smith-Waterman, for homology search. At Blastn speed, PatternHunter II approaches Smith-Waterman sensitivity, bringing homology search methodology research back to a full circle.

MeSH Terms
Algorithms Artificial Intelligence Databases, Genetic Pattern Recognition, Automated/methods Reproducibility of Results Sensitivity and Specificity Sequence Alignment/methods Sequence Analysis/methods
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Li Ming
Department of Computer Science, University of Waterloo, Waterloo, ON, Canada N2L 3G. [email protected]
Ma Bin
Kisman Derek
Tromp John
Article Info
Journal
Journal of bioinformatics and computational biology
Abbr.
J Bioinform Comput Biol
ISSN
0219-7200
DOI
10.1142/s0219720004000661
Email
[email protected]
Published
2004-09-00
Pages
417-39
Language
English
Region
Singapore
NLM ID
101187344
Subset
IM
External Links
PubMed source DOI: 10.1142/s0219720004000661 View journal details
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