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New Method for Potential Fusions Detection in Protein-Coding Sequences

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dc.contributor.authorSuvorova, Yulia M.
dc.contributor.authorKorotkov, Eugene V.
dc.contributor.authorКоротков, Евгений Вадимович
dc.date.accessioned2024-11-21T10:12:22Z
dc.date.available2024-11-21T10:12:22Z
dc.date.issued2019
dc.description.abstractGene fusion is known to be one of the mechanisms of a new gene formation. Most bioinformatics methods for studying fused genes are based on the sequence similarity search. However, if the ancestral sequences were lost during evolution or changed too much, it is impossible to detect the fusion. Previously, we have developed a method of searching for triplet periodicity (TP) change points in protein-coding sequences (CDS) and showed the possible relation of this phenomenon with gene formation as a result of fusion. In this study, we improved the TP change point detection method and studied the genes of six eukaryotic genomes. At the level of 2%-3% of the probability of type I error, TP change points were found in 20%-40% of genes. Further analysis showed that about 30% of the TP change points can be explained by amino acid repeats. Another 30% can be potentially fused genes, alignment for which was detected by the BLAST program. We believe that the rest of the results can be fused genes, the ancestral sequences for which have been lost. The method is more sensitive to TP changes and allowed us to find up to two to three times more cases of significant TP change points than our previous method.
dc.identifier.citationSuvorova, Yulia M. New Method for Potential Fusions Detection in Protein-Coding Sequences / Suvorova, YuliaM, Korotkov, Eugene, V // Journal of Computational Biology. - 2019. - 10.1089/cmb.2019.0122
dc.identifier.doi10.1089/cmb.2019.0122
dc.identifier.urihttps://www.doi.org/10.1089/cmb.2019.0122
dc.identifier.urihttps://www.scopus.com/record/display.uri?eid=2-s2.0-85074737432&origin=resultslist
dc.identifier.urihttp://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=Alerting&SrcApp=Alerting&DestApp=WOS_CPL&DestLinkType=FullRecord&UT=WOS:000475160400001
dc.identifier.urihttps://openrepository.mephi.ru/handle/123456789/18383
dc.relation.ispartofJournal of Computational Biology
dc.titleNew Method for Potential Fusions Detection in Protein-Coding Sequences
dc.typeArticle
dspace.entity.typePublication
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