Please use this identifier to cite or link to this item: https://research.matf.bg.ac.rs/handle/123456789/316
DC FieldValueLanguage
dc.contributor.authorMitić, Nenaden_US
dc.contributor.authorPavlović-Lazetić, Gordana Men_US
dc.contributor.authorBeljanski, Milos Ven_US
dc.date.accessioned2022-08-09T12:39:29Z-
dc.date.available2022-08-09T12:39:29Z-
dc.date.issued2008-
dc.identifier.issn15320464-
dc.identifier.urihttps://research.matf.bg.ac.rs/handle/123456789/316-
dc.description.abstractThere are two approaches to identifying genomic and pathogenesis islands (GI/PAIs) in bacterial genomes: the compositional and the functional, based on DNA or protein level composition and gene function, respectively. We applied n-gram analysis in addition to other compositional features, combined them by union and intersection and defined two measures for evaluating the results-recall and precision. Using the best criteria (by training on the Escherichia coli O157:H7 EDL933 genome), we predicted GIs for 14 Enterobacteriaceae family members and for 21 randomly selected bacterial genomes. These predictions were compared with results obtained from HGT DB (based on the compositional approach) and PAI DB (based on the combined approach). The results obtained show that intersecting n-grams with other compositional features improves relative precision by up to 10% in case of HGT DB and up to 60% in case of PAI DB. In addition, it was demonstrated that the union of all compositional features results in maximum recall (up to 37%). Thus, the application of n-gram analysis alongside existing or newly developed methods may improve the prediction of GI/PAIs.en_US
dc.language.isoenen_US
dc.relation.ispartofJournal of biomedical informaticsen_US
dc.subjectBacteriaen_US
dc.subjectEscherichia colien_US
dc.subjectGenomic islandsen_US
dc.subjectn-Gramsen_US
dc.titleCould n-gram analysis contribute to genomic island determination?en_US
dc.typeArticleen_US
dc.identifier.doi10.1016/j.jbi.2008.03.007-
dc.identifier.pmid18448392-
dc.identifier.scopus2-s2.0-55649117683-
dc.identifier.urlhttps://api.elsevier.com/content/abstract/scopus_id/55649117683-
dc.relation.firstpage936en_US
dc.relation.lastpage943en_US
dc.relation.volume41en_US
dc.relation.issue6en_US
item.fulltextNo Fulltext-
item.languageiso639-1en-
item.openairecristypehttp://purl.org/coar/resource_type/c_18cf-
item.cerifentitytypePublications-
item.grantfulltextnone-
item.openairetypeArticle-
crisitem.author.deptInformatics and Computer Science-
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