FUNGI: Fusion Gene Integration Toolset

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dc.contributor.authorCervera Alejandra
dc.contributor.authorRausio Heidi
dc.contributor.authorKähkönen Tiia
dc.contributor.authorAndersson Noora
dc.contributor.authorPartel Gabriele
dc.contributor.authorRantanen Ville
dc.contributor.authorPaciello Giulia
dc.contributor.authorFicarra Elisa
dc.contributor.authorHynninen Johanna
dc.contributor.authorHietanen Sakari
dc.contributor.authorCarpén Olli
dc.contributor.authorLehtonen Rainer
dc.contributor.authorHautaniemi Sampsa
dc.contributor.authorHuhtinen Kaisa
dc.contributor.organizationfi=biolääketieteen laitos|en=Institute of Biomedicine|
dc.contributor.organizationfi=fysiologia ja genetiikka|en=Physiology and Genetics|
dc.contributor.organizationfi=lääketieteellinen tiedekunta|en=Faculty of Medicine|
dc.contributor.organizationfi=synnytys- ja naistentautioppi|en=Obstetrics and Gynaecology|
dc.contributor.organizationfi=tyks, vsshp|en=tyks, varha|
dc.contributor.organization-code1.2.246.10.2458963.20.13290506867
dc.contributor.organization-code1.2.246.10.2458963.20.74725736230
dc.contributor.organization-code1.2.246.10.2458963.20.77952289591
dc.contributor.organization-code2606404
dc.contributor.organization-code2607100
dc.converis.publication-id68087663
dc.converis.urlhttps://research.utu.fi/converis/portal/Publication/68087663
dc.date.accessioned2022-10-28T14:17:50Z
dc.date.available2022-10-28T14:17:50Z
dc.description.abstract<p><strong>Motivation: </strong>Fusion genes are both useful cancer biomarkers and important drug targets. Finding relevant fusion genes is challenging due to genomic instability resulting in a high number of passenger events. To reveal and prioritize relevant gene fusion events we have developed FUNGI (FUsionN Gene Identification toolset) that uses an ensemble of fusion detection algorithms with prioritization and visualization modules.</p><p><strong>Results: </strong>We applied FUNGI to an ovarian cancer dataset of 107 tumor samples from 36 patients. Ten out of 11 detected and prioritized fusion genes were validated. Many of detected fusion genes affect the PI3K-AKT pathway with potential role in treatment resistance.</p>
dc.format.pagerange3353
dc.format.pagerange3355
dc.identifier.jour-issn1367-4803
dc.identifier.olddbid187442
dc.identifier.oldhandle10024/170536
dc.identifier.urihttps://www.utupub.fi/handle/11111/43024
dc.identifier.urlhttps://academic.oup.com/bioinformatics/article/37/19/3353/6194566
dc.identifier.urnURN:NBN:fi-fe2022012711008
dc.language.isoen
dc.okm.affiliatedauthorRausio, Heidi
dc.okm.affiliatedauthorKähkönen, Tiia
dc.okm.affiliatedauthorHynninen, Johanna
dc.okm.affiliatedauthorHietanen, Sakari
dc.okm.affiliatedauthorCarpen, Olli
dc.okm.affiliatedauthorHuhtinen, Kaisa
dc.okm.affiliatedauthorDataimport, tyks, vsshp
dc.okm.discipline3111 Biomedicineen_GB
dc.okm.discipline3122 Cancersen_GB
dc.okm.discipline3111 Biolääketieteetfi_FI
dc.okm.discipline3122 Syöpätauditfi_FI
dc.okm.internationalcopublicationinternational co-publication
dc.okm.internationalityInternational publication
dc.okm.typeA1 ScientificArticle
dc.publisherOxford University Press
dc.publisher.countryUnited Kingdomen_GB
dc.publisher.countryBritanniafi_FI
dc.publisher.country-codeGB
dc.relation.doi10.1093/bioinformatics/btab206
dc.relation.ispartofjournalBioinformatics
dc.relation.issue19
dc.relation.volume37
dc.source.identifierhttps://www.utupub.fi/handle/10024/170536
dc.titleFUNGI: Fusion Gene Integration Toolset
dc.year.issued2021

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