YASS: enhancing the sensitivity of DNA similarity search.

Laurent Noé 1, 2, * Gregory Kucherov 1, 2
* Corresponding author
2 SEQUOIA - Sequential Learning
LIFL - Laboratoire d'Informatique Fondamentale de Lille, Inria Lille - Nord Europe
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.
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Laurent Noé, Gregory Kucherov. YASS: enhancing the sensitivity of DNA similarity search.. Nucleic Acids Research, Oxford University Press, 2005, 33 (Web Server issue), pp.W540-3. ⟨http://nar.oxfordjournals.org/cgi/content/short/33/suppl_2/W540⟩. ⟨10.1093/nar/gki478⟩. ⟨inria-00448742⟩



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