Effective induction of gene regulatory networks using a novel recommendation method

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dc.authorid0000-0001-6657-9738
dc.contributor.authorÖzsoy, Makbule Gülçin
dc.contributor.authorPolat, Faruk
dc.contributor.authorAlhajj, Reda
dc.date.accessioned10.07.201910:49:13
dc.date.accessioned2019-07-10T19:36:38Z
dc.date.available10.07.201910:49:14
dc.date.available2019-07-10T19:36:38Z
dc.date.issued2019
dc.departmentİstanbul Medipol Üniversitesi, Mühendislik ve Doğa Bilimleri Fakültesi, Bilgisayar Mühendisliği Bölümü
dc.description.abstractIn this paper, we introduce a method based on recommendation systems to predict the structure of Gene Regulatory Networks (GRNs) making use of data from multiple sources. Our method is based on collaborative filtering approach enhanced with multiple criteria to predict the relationships of genes, i.e., which genes regulate others. We conduct experiments on two data sets to demonstrate the applicability and sustainability of our proposal. The first data set is composed of microarray data and Transcription Factor (TF) binding data, and it is evaluated by precision, recall and the F1-measure. The second data set is the Dream4 In Silico Network Challenge data set, and it is evaluated by the measures that are used during the challenge, namely the Area Under Precision and Recall curve (AUC-PR), the Area Under the Receiver Operating Characteristic curve (AUC-ROC) and their averages. The experimental results show that applying algorithms from the recommendation systems domain on the problem of inference of GRN structures is effective. Also, we observed that combining information from multiple data sets gives better results.
dc.description.sponsorshipTUBITAK-BIDEB 2214/A programen_US
dc.identifier.citationÖzsoy, M. G., Polat, F. ve Alhajj, R. (2019). Effective induction of gene regulatory networks using a novel recommendation method. International Journal of Data Mining and Bioinformatics, 22(2), 91-112. https://dx.doi.org/10.1504/IJDMB.2019.099714
dc.identifier.doi10.1504/IJDMB.2019.099714
dc.identifier.endpage112
dc.identifier.issn1748-5673
dc.identifier.issn1748-5681
dc.identifier.issue2
dc.identifier.scopusqualityQ2
dc.identifier.startpage91
dc.identifier.urihttps://hdl.handle.net/20.500.12511/1216
dc.identifier.urihttps://dx.doi.org/10.1504/IJDMB.2019.099714
dc.identifier.volume22
dc.identifier.wosqualityQ4
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.language.isoen
dc.publisherInderscience Enterprises Ltd.
dc.relation.ispartofInternational Journal of Data Mining and Bioinformaticsen_US
dc.relation.publicationcategoryKonferans Öğesi - Uluslararası - Kurum Öğretim Elemanı
dc.rightsinfo:eu-repo/semantics/closedAccess
dc.subjectCollaborative Filtering
dc.subjectGene Regulatory Networks
dc.subjectGRNs
dc.subjectMultiple Data Sources
dc.subjectPareto Dominance
dc.subjectRecommendation Systems
dc.titleEffective induction of gene regulatory networks using a novel recommendation method
dc.typeArticle

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