Journal Article

·2017

A combinatorial approach to construct core and generic gene co-expression networks of colon cancer

Mustafa Özgür Cingiz YTU , Göksel Biricik YTU , Banu Di̇ri̇ YTU

Abstract

Biological experiments can be set in order to detect the causes of diseases. However, they are expensive and time consuming. Recent developments in sequencing technologies help researchers to more easily reveal the underlying mechanisms of the diseases. In this study, we propose a combinatorial method to construct generic and core gene co-expression networks (GCNs) to discover the genes and their interactions related to colon cancer. We apply five gene network inference (GNI) algorithms and combine their estimations with Simple Majority Voting to specify the frequently inferred gene interactions and obtain the resulting GCNs on two different gene expression datasets. We then apply the intersection and union operators on these GCNS to derive the core and generic GCNs, respectively. The evaluation results of overlap analysis and topological features of GCNs for the colon cancer show that the networks produced with the proposed approach fit to the power-law degree distribution better.

Keywords

Construct (python library) Inference Set (abstract data type) Voting Expression (computer science) Computer science Majority rule Core (optical fiber) Intersection (aeronautics) Computational biology Gene regulatory network Proof of concept Gene Theoretical computer science Data mining Artificial intelligence Gene expression Biology Engineering Genetics Computer network

Subject Areas

Bioinformatics and Genomic Networks ·Molecular Biology ·Life Sciences
Gene expression and cancer classification ·Molecular Biology ·Life Sciences
Gene Regulatory Network Analysis ·Molecular Biology ·Life Sciences

Citations by Year

OpenAlex SDG Match

SDGs auto-classified by OpenAlex (score ≥ 0.4 shown).

Good health and well-being 42%