YASS: Enhancing the sensitivity of DNA similarity search

Laurent Noé, Gregory Kucherov

Research output: Contribution to journalArticlepeer-review

214 Citations (Scopus)

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.

Original languageEnglish
Pages (from-to)W540-W543
JournalNucleic Acids Research
Volume33
Issue numberSUPPL. 2
DOIs
Publication statusPublished - Jul 2005
Externally publishedYes

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