Measuring Cancer Driving Force of Chromosomal Aberrations Through Multi-layer Boolean Implication Networks

Overview

Journal PLoS One

Specialties General Medicine
Science

Date 2024 Apr 9

PMID 38593144

Authors

Ilaria Cosentini

Daniele Filippo Condorelli

Giorgio Locicero

Alfredo Ferro

Alfredo Pulvirenti

Vincenza Barresi

Salvatore Alaimo

Affiliations

Soon will be listed here.

Abstract

Multi-layer Complex networks are commonly used for modeling and analysing biological entities. This paper presents the advantage of using COMBO (Combining Multi Bio Omics) to suggest a new role of the chromosomal aberration as a cancer driver factor. Exploiting the heterogeneous multi-layer networks, COMBO integrates gene expression and DNA-methylation data in order to identify complex bilateral relationships between transcriptome and epigenome. We evaluated the multi-layer networks generated by COMBO on different TCGA cancer datasets (COAD, BLCA, BRCA, CESC, STAD) focusing on the effect of a specific chromosomal numerical aberration, broad gain in chromosome 20, on different cancer histotypes. In addition, the effect of chromosome 8q amplification was tested in the same TCGA cancer dataset. The results demonstrate the ability of COMBO to identify the chromosome 20 amplification cancer driver force in the different TCGA Pan Cancer project datasets.

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