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1: Source Code Biol Med. 2008 May 27;3:9.Click here to read Click here to read Links

FASH: A web application for nucleotides sequence search.

Veksler-Lublinksy I, Barash D, Avisar C, Troim E, Chew P, Kedem K.

Department of Computer Science, Ben-Gurion University, 84105 Beer-Sheva, Israel. klara@cs.bgu.ac.il.

ABSTRACT: : FASH (Fourier Alignment Sequence Heuristics) is a web application, based on the Fast Fourier Transform, for finding remote homologs within a long nucleic acid sequence. Given a query sequence and a long text-sequence (e.g, the human genome), FASH detects subsequences within the text that are remotely-similar to the query. FASH offers an alternative approach to Blast/Fasta for querying long RNA/DNA sequences. FASH differs from these other approaches in that it does not depend on the existence of contiguous seed-sequences in its initial detection phase. The FASH web server is user friendly and very easy to operate. AVAILABILITY: FASH can be accessed athttps://fash.bgu.ac.il:8443/fash/default.jsp (secured website).

PMID: 18505581 [PubMed - in process]

PMCID: PMC2426692