Title: A detailed in-silico analysis of potential gastric cancer molecular marker genes in the literature

Authors: Sedef Hande Aktas; Dilara Fatma Akin-Bali; Ozan Yazici

Addresses: Translational Medicine Research and Clinical Centre, Eskişehir Osmangazi University, Eskişehir, Turkey; Vocational School of Health Services, Eskişehir Osmangazi University, Eskişehir, Turkey ' Department of Medical Biology, Faculty of Medicine, Nigde Omer Halisdemir University, Nigde, Turkey ' Department of Medical Oncology, Faculty of Medicine, Gazi University, Ankara, Turkey

Abstract: Genes found extremely important for the diagnosis and prognosis of Gastric Cancer (GC) in the literature between 2015 and 2020 were analysed in detail by in-silico methods. Thereby, broadly-based analysis of the genes was performed for future studies of GC. For this purpose, expression, pathological stage, Overall Survival (OS) and Disease Free Survival (DFS) plots were carried out with GEPIA web tool. PolyPhen-2 and SNAP tools were used to detect pathogenic impact of the mutations. As a result, COL10A1, SOX9, MTBP, CCL5, PSMB8 and PBK genes were found significant to distinguish individuals with GC from healthy individuals. PCDH9 and HGF genes were found significant for both OS and DFS. METTL3, COL10A1, USP3, CCL5, IMP3, CXCR6, PBK, HGF, MRC1, CD163, SSP1 genes were found correlated with the stage of GC. Effect of the mutations of PCDH9 and HGF genes, especially on the Kringle domain of HGF gene, were found pathogenic.

Keywords: gastric cancer; molecular marker; PCDH9; HGF; Kringle domain; COL10A1; SOX9; CCL5; PSMB8; PBK.

DOI: 10.1504/IJDMB.2021.122861

International Journal of Data Mining and Bioinformatics, 2021 Vol.25 No.3/4, pp.201 - 215

Received: 21 May 2021
Accepted: 10 Feb 2022
Published online: 13 May 2022 *

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