Fusionnw, a Potential Clinical Impact Assessment of Kinases in Pan-Cancer Fusion Gene Network

Authors

Chengyuan Yang
Himansu Kumar
Pora Kim

Publication Date

1-22-2024

Journal

Briefings in Bioinformatics

Abstract

Kinase fusion genes are the most active fusion gene group in human cancer fusion genes. To help choose the clinically significant kinase so that the cancer patients that have fusion genes can be better diagnosed, we need a metric to infer the assessment of kinases in pan-cancer fusion genes rather than relying on the sample frequency expressed fusion genes. Most of all, multiple studies assessed human kinases as the drug targets using multiple types of genomic and clinical information, but none used the kinase fusion genes in their study. The assessment studies of kinase without kinase fusion gene events can miss the effect of one of the mechanisms that enhance the kinase function in cancer. To fill this gap, in this study, we suggest a novel way of assessing genes using a network propagation approach to infer how likely individual kinases influence the kinase fusion gene network composed of ~5K kinase fusion gene pairs. To select a better seed of propagation, we chose the top genes via dimensionality reduction like a principal component or latent layer information of six features of individual genes in pan-cancer fusion genes. Our approach may provide a novel way to assess of human kinases in cancer.

Keywords

kinase, fusion gene, gene assessment, network propagation, variational autoencoder, feature reduction

Comments

Supplementary Materials

PMID: 38493341