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Please use this identifier to cite or link to this item: https://doi.org/10.1016/j.cmpb.2007.01.002
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dc.titleGRAT-genome-scale rapid alignment tool
dc.contributor.authorKindlund, E.
dc.contributor.authorTammi, M.T.
dc.contributor.authorArner, E.
dc.contributor.authorNilsson, D.
dc.contributor.authorAndersson, B.
dc.date.accessioned2014-10-27T08:29:42Z
dc.date.available2014-10-27T08:29:42Z
dc.date.issued2007-04
dc.identifier.citationKindlund, E., Tammi, M.T., Arner, E., Nilsson, D., Andersson, B. (2007-04). GRAT-genome-scale rapid alignment tool. Computer Methods and Programs in Biomedicine 86 (1) : 87-92. ScholarBank@NUS Repository. https://doi.org/10.1016/j.cmpb.2007.01.002
dc.identifier.issn01692607
dc.identifier.urihttp://scholarbank.nus.edu.sg/handle/10635/100788
dc.description.abstractModern alignment methods designed to work rapidly and efficiently with large datasets often do so at the cost of method sensitivity. To overcome this, we have developed a novel alignment program, GRAT, built to accurately align short, highly similar DNA sequences. The program runs rapidly and requires no more memory and CPU power than a desktop computer. In addition, specificity is ensured by statistically separating the true alignments from spurious matches using phred quality values. An efficient separation is especially important when searching large datasets and whenever there are repeats present in the dataset. Results are superior in comparison to widely used existing software, and analysis of two large genomic datasets show the usefulness and scalability of the algorithm. © 2007 Elsevier Ireland Ltd. All rights reserved.
dc.description.urihttp://libproxy1.nus.edu.sg/login?url=http://dx.doi.org/10.1016/j.cmpb.2007.01.002
dc.sourceScopus
dc.subjectApproximate seed matching
dc.subjectDNA sequence alignments
dc.subjectSNP discovery
dc.typeArticle
dc.contributor.departmentBIOLOGICAL SCIENCES
dc.description.doi10.1016/j.cmpb.2007.01.002
dc.description.sourcetitleComputer Methods and Programs in Biomedicine
dc.description.volume86
dc.description.issue1
dc.description.page87-92
dc.description.codenCMPBE
dc.identifier.isiut000245545600011
Appears in Collections:Staff Publications

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