Publication:
Machine learning-based unenhanced CT texture analysis for predicting BAP1 mutation status of clear cell renal cell carcinomas

dc.contributor.coauthorKocak, Burak
dc.contributor.coauthorDurmaz, Emine Sebnem
dc.contributor.coauthorKilickesmez, Ozgur
dc.contributor.departmentKUH (Koç University Hospital)
dc.contributor.kuauthorKaya, Özlem Korkmaz
dc.contributor.schoolcollegeinstituteKUH (KOÇ UNIVERSITY HOSPITAL)
dc.date.accessioned2024-11-09T23:44:09Z
dc.date.issued2020
dc.description.abstractBackground BRCA1-associated protein 1 (BAP1) mutation is an unfavorable factor for overall survival in patients with clear cell renal cell carcinoma (ccRCC). Radiomics literature about BAP1 mutation lacks papers that consider the reliability of texture features in their workflow. Purpose Using texture features with a high inter-observer agreement, we aimed to develop and internally validate a machine learning-based radiomic model for predicting the BAP1 mutation status of ccRCCs. Material and Methods For this retrospective study, 65 ccRCCs were included from a public database. Texture features were extracted from unenhanced computed tomography (CT) images, using two-dimensional manual segmentation. Dimension reduction was done in three steps: (i) inter-observer agreement analysis; (ii) collinearity analysis; and (iii) feature selection. The machine learning classifier was random forest. The model was validated using 10-fold nested cross-validation. The reference standard was the BAP1 mutation status. Results Out of 744 features, 468 had an excellent inter-observer agreement. After the collinearity analysis, the number of features decreased to 17. Finally, the wrapper-based algorithm selected six features. Using selected features, the random forest correctly classified 84.6% of the labelled slices regarding BAP1 mutation status with an area under the receiver operating characteristic curve of 0.897. For predicting ccRCCs with BAP1 mutation, the sensitivity, specificity, and precision were 90.4%, 78.8%, and 81%, respectively. For predicting ccRCCs without BAP1 mutation, the sensitivity, specificity, and precision were 78.8%, 90.4%, and 89.1%, respectively. Conclusion Machine learning-based unenhanced CT texture analysis might be a potential method for predicting the BAP1 mutation status of ccRCCs.
dc.description.indexedbyWOS
dc.description.indexedbyScopus
dc.description.indexedbyPubMed
dc.description.issue6
dc.description.openaccessNO
dc.description.publisherscopeInternational
dc.description.sponsoredbyTubitakEuN/A
dc.description.volume61
dc.identifier.doi10.1177/0284185119881742
dc.identifier.eissn1600-0455
dc.identifier.issn0284-1851
dc.identifier.scopus2-s2.0-85074557419
dc.identifier.urihttps://doi.org/10.1177/0284185119881742
dc.identifier.urihttps://hdl.handle.net/20.500.14288/13612
dc.identifier.wos491755700001
dc.keywordsArtificial intelligence
dc.keywordsmachine learning
dc.keywordsradiogenomics
dc.keywordsradiomics
dc.keywordstexture analysis
dc.keywordsclear cell renal cell carcinoma
dc.keywordsPBRM1
dc.keywordsSELECTION
dc.keywordsRADIOGENOMICS
dc.keywordsSETD2
dc.keywordsBIAS
dc.keywordsVHL
dc.language.isoeng
dc.publisherSage Publications Ltd
dc.relation.ispartofActa Radiologica
dc.subjectRadiology
dc.subjectNuclear medicine
dc.subjectMedical imaging
dc.titleMachine learning-based unenhanced CT texture analysis for predicting BAP1 mutation status of clear cell renal cell carcinomas
dc.typeJournal Article
dspace.entity.typePublication
local.contributor.kuauthorKaya, Özlem Korkmaz
local.publication.orgunit1KUH (KOÇ UNIVERSITY HOSPITAL)
local.publication.orgunit2KUH (Koç University Hospital)
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