Sequence Searcher : a Java tool to perform regular expression and fuzzy searches of multiple DNA and protein sequences

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dc.contributor.authorMarass, Francesco
dc.contributor.authorUpton, Christopher
dc.date.accessioned2013-11-27T22:20:53Z
dc.date.available2013-11-27T22:20:53Z
dc.date.copyright2009en_US
dc.date.issued2009-01-30
dc.descriptionBioMed Centralen_US
dc.description.abstractBackground: Many sequence-searching tools have limiting factors for their use. For example, they may be platform specific, enforce restrictive size limits and sequences to be searched, or only allow searches of one of DNA or protein. Findings: We present an easy-to-use, fast, platform-independent tool to search for amino acid or nucleotide patterns within one or many protein or nucleic acid sequences. The user can choose to search for regular expressions or perform a fuzzy search in which a particular number of errors is accepted during matching of a sequence. Positions of mismatches in fuzzy searches are displayed graphically the user. Conclusion: SeqS provides an improved feature set and functions as a stand-alone tool or could be integrated into other bioinformatics platforms.en_US
dc.description.reviewstatusRevieweden_US
dc.description.scholarlevelFacultyen_US
dc.description.sponsorshipThis work was supported by NIAID grant HHSN266200400036C.en_US
dc.identifier.citationMarass and Upton. Sequence Searcher: a Java tool to perform regular expression and fuzzy searches of multiple DNA and protein sequences. BMC Research Notes 2009, 2:14en_US
dc.identifier.urihttp://www.biomedcentral.com/1756-0500/2/14
dc.identifier.urihttp://dx.doi.org/10.1186/1756-0500-2-14
dc.identifier.urihttp://hdl.handle.net/1828/5041
dc.language.isoenen_US
dc.publisherBioMed Centralen_US
dc.titleSequence Searcher : a Java tool to perform regular expression and fuzzy searches of multiple DNA and protein sequencesen_US
dc.typeArticleen_US

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