An Integrated RNA and DNA Molecular Signature for Colorectal Cancer Classification

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dc.contributor.authorMohammed, Mohanad
dc.contributor.authorMwambi, Henry
dc.contributor.authorOmolo, Bernard
dc.date.accessioned2021-05-07T12:32:22Z
dc.date.available2021-05-07T12:32:22Z
dc.date.issued2019-08
dc.descriptionPaper presented at the 5th Strathmore International Mathematics Conference (SIMC 2019), 12 - 16 August 2019, Strathmore University, Nairobi, Kenyaen_US
dc.description.abstractColorectal cancer (CRC) is the third most common cancer among women and men in the USA. The KRAS gene is mutated in 40% of the CRC cases and hence the RAS pathway activation has become a major focus of drug targeting efforts. However, nearly 60% of patients with wild-type KRAS fail to respond to RAS targeted therapies, for example the anti-epithelial growth factor receptor inhibitor (EGFRi) combination therapies. Thus, there is a need to develop more reliable molecular signatures to better predict mutation status. In this study, we develop a hybrid (DNA mutation and RNA expression) signature and assess its predictive properties for the mutation status of CRC patients. Publicly-available microarray and RNA-Seq data from 54 matched formalin-fixed paraffin embedded (FFPE) samples from the Affymetrix GeneChip and RNA-Seq platforms, were used to obtain differentially expressed genes between mutant and wild-type samples. For classification, the support-vector machines, artificial neural networks, random forests, k-nearest neighbors and the nave Bayes algorithms were employed. Compared to the genelist from each of the platforms, the hybrid genelist had the highest accuracy, sensitivity, specificity and AUC for mutation status and could therefore be useful in clinical practice, especially for colorectal cancer diagnosis and therapeutics.en_US
dc.description.sponsorshipUniversity of KwaZulu-Natal, South Africa. University of South Carolina — Upstate, United States of America.en_US
dc.identifier.urihttp://hdl.handle.net/11071/10471
dc.language.isoen_USen_US
dc.publisherStrathmore Universityen_US
dc.titleAn Integrated RNA and DNA Molecular Signature for Colorectal Cancer Classificationen_US
dc.typeArticleen_US
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