Genet-CNV: Boolean Implication Networks for Modelling Genome-Wide Co-occurrence of DNA Copy Number Variations

Abstract

Boolean implication networks (Genet) have been utilized to model gene co-expression networks in our previous research. In this study, they are constructed to model the co-occurrence of amplification/deletion events in DNA copy number variations (CNVs) at a genome-wide scale. The Boolean implication scheme extends the dichotomous nature of the variable under scrutiny such that it can have numerous discrete values corresponding to DNA CNVs, and pairwise co-occurrence of CNVs is computed. The implication network was implemented in a software package (Genet-CNV) and run on 271 patient samples afflicted with non-small cell lung cancer (NSCLC )[GSE31800].