Title: Integrative analysis of molecular genetic targets and pathways in colorectal cancer through screening large-scale microarray data

Authors: Elif Onur; Tuba Denkçeken

Addresses: Faculty of Medicine, Department of Medical Biology, SANKO University, Şehitkamil, Gaziantep, Turkey ' Faculty of Medicine, Department of Biophysics, SANKO University, Şehitkamil, Gaziantep, Turkey

Abstract: Our aim was to make comprehensive analyses of mRNAs and miRNAs in early diagnosis of Colorectal Cancer (CRC) via Principal Component Analysis (PCA)-based Unsupervised Feature Extraction (UFE) and additional bioinformatics approaches. miRNA and mRNA expression profiling studies of CRC in the GEO were downloaded. PCA-based UFE was used to define significant mRNA and miRNAs. The target genes of the identified miRNAs were determined, and the common gene clusters were determined with the mRNAs analysed from GEO. Functional enrichment analysis was conducted with DAVID. PPI network was established with the STRING, and the mRNA-miRNA regulatory network was established with Cytoscape. Determined hub-miRNAs/hub-genes were verified using TCGA. PPI, Cytoscape and TCGA verification analysis demonstrated that three hub-genes and five hub-miRNAs were found to be significant in CRC. Dysregulation of these may contribute to CRC development and may be considered a new target in CRC therapy.

Keywords: bioinformatics; colorectal cancer; mRNA; miRNA; microarray; principal component analysis-based unsupervised feature extraction.

DOI: 10.1504/IJDMB.2021.124112

International Journal of Data Mining and Bioinformatics, 2021 Vol.26 No.1/2, pp.81 - 98

Received: 16 Nov 2021
Accepted: 11 May 2022

Published online: 13 Jul 2022 *

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