RPINBASE: An online toolbox to extract features for predicting RNA-protein interactions

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dc.contributor.authorTorkamanian-Afshar, Mahsa
dc.contributor.authorLanjanian, Hossein
dc.contributor.authorNematzadeh, Sajjad
dc.contributor.authorTabarzad, Maryam
dc.contributor.authorNajafi, Ali
dc.contributor.authorKiani, Farzad
dc.contributor.authorMasoudi-Nejad, Ali
dc.date.accessioned2024-03-13T10:35:10Z
dc.date.available2024-03-13T10:35:10Z
dc.date.issued2020
dc.departmentİstanbul Beykent Üniversitesien_US
dc.description.abstractFeature extraction is one of the most important preprocessing steps in predicting the interactions between RNAs and proteins by applying machine learning approaches. Despite many efforts in this area, still, no suitable structural feature extraction tool has been designed. Therefore, an online toolbox, named RPINBASE which can be applied to different scopes of biological applications, is introduced in this paper. This toolbox employs efficient nested queries that enhance the speed of the requests and produces desired features in the form of positive and negative samples. To show the capabilities of the proposed toolbox, the developed toolbox was investigated in the aptamer design problem, and the obtained results are discussed. RPINBASE is an online toolbox and is accessible at http://rpinbase.com.en_US
dc.identifier.doi10.1016/j.ygeno.2020.02.013
dc.identifier.endpage2632en_US
dc.identifier.issn0888-7543
dc.identifier.issn1089-8646
dc.identifier.issue3en_US
dc.identifier.pmid32092438en_US
dc.identifier.scopus2-s2.0-85080074128en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage2623en_US
dc.identifier.urihttps://doi.org/10.1016/j.ygeno.2020.02.013
dc.identifier.urihttps://hdl.handle.net/20.500.12662/4287
dc.identifier.volume112en_US
dc.identifier.wosWOS:000519997800056en_US
dc.identifier.wosqualityQ1en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.language.isoenen_US
dc.publisherAcademic Press Inc Elsevier Scienceen_US
dc.relation.ispartofGenomicsen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectBiological applicationsen_US
dc.subjectFeature extractionen_US
dc.subjectMachine learningen_US
dc.subjectRNA-protein interactionsen_US
dc.subjectRPINBASEen_US
dc.titleRPINBASE: An online toolbox to extract features for predicting RNA-protein interactionsen_US
dc.typeArticleen_US

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