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Mining poly-regions in DNA
Stockholms universitet, Samhällsvetenskapliga fakulteten, Institutionen för data- och systemvetenskap.
2012 (engelsk)Inngår i: International journal on data mining and bioinformatics, ISSN 1748-5673, Vol. 6, nr 4, 406-428 s.Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

We study the problem of mining poly-regions in DNA. A poly-region is defined as a bursty DNA area, i.e., area of elevated frequency of a DNA pattern. We introduce a general formulation that covers a range of meaningful types of poly-regions and develop three efficient detection methods. The first applies recursive segmentation and is entropy-based. The second uses a set of sliding windows that summarize each sequence segment using several statistics. Finally, the third employs a technique based on majority vote. The proposed algorithms are tested on DNA sequences of four different organisms in terms of recall and runtime.

sted, utgiver, år, opplag, sider
InderScience Publishers, 2012. Vol. 6, nr 4, 406-428 s.
HSV kategori
Forskningsprogram
data- och systemvetenskap
Identifikatorer
URN: urn:nbn:se:su:diva-100729DOI: 10.1504/IJDMB.2012.049278OAI: oai:DiVA.org:su-100729DiVA: diva2:695737
Tilgjengelig fra: 2014-02-12 Laget: 2014-02-12 Sist oppdatert: 2014-04-22bibliografisk kontrollert

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