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PMID: 15980530 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

YASS: enhancing the sensitivity of DNA similarity search.

Nucleic acids research ·Vol. 33 ·No. Web Server issue ·2005-07-01 ·Pages W540-3

Noé L, Kucherov G

Abstract

YASS is a DNA local alignment tool based on an efficient and sensitive filtering algorithm. It applies transition-constrained seeds to specify the most probable conserved motifs between homologous sequences, combined with a flexible hit criterion used to identify groups of seeds that are likely to exhibit significant alignments. A web interface (http://www.loria.fr/projects/YASS/) is available to upload input sequences in fasta format, query the program and visualize the results obtained in several forms (dot-plot, tabular output and others). A standalone version is available for download from the web page.

MeSH Terms
Algorithms Computer Graphics Genomics/methods Internet Sequence Alignment/methods Sequence Analysis, DNA/methods Sequence Homology, Nucleic Acid Software User-Computer Interface
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Noé Laurent
LORIA/INRIA-Lorraine 615 rue du Jardin Botanique, 54602 Villers-les-Nancy, France. [email protected]
Kucherov Gregory
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gki478
Email
[email protected]
Published
2005-07-01
Pages
W540-3
Language
English
Region
England
NLM ID
0411011
PMCID
PMC1160238
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gki478 PMC Full Text View journal details
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