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Activity Number: 331 - Recent Developments in High-Throughput, Large-Scale Biomedical Data Analysis
Type: Invited
Date/Time: Thursday, August 12, 2021 : 10:00 AM to 11:50 AM
Sponsor: International Chinese Statistical Association
Abstract #316623
Title: DiSNEP: A Disease-Specific Gene Network Enhancement to Improve Prioritizing Candidate Disease Genes
Author(s): Shuang Wang*
Companies: Columbia Uiversity
Keywords: network-based strategies; diffusion process; gene prioritization
Abstract:

Biological network-based strategies are useful in prioritizing genes associated with diseases. Several comprehensive human gene networks such as STRING, GIANT and HumanNet were developed and used in network-assisted algorithms to identify disease-associated genes. None of them are disease-specific and may not accurately reflect gene interactions for a specific disease. Aiming to improve disease gene prioritization using networks, we propose a Disease-Specific Network Enhancement Prioritization (DiSNEP) framework. DiSNEP enhances a comprehensive gene network for a disease through a diffusion process on a gene-gene similarity matrix derived from a disease omics data. The enhanced disease-specific gene network thus better reflects true gene interactions for the disease and improves prioritizing disease-associated genes subsequently. In simulations, DiSNEP prioritizes more true signal genes than competing methods using a general gene network. Applications to prioritize cancer-associated gene expression and DNA methylation signal genes for five cancer types from The Cancer Genome Atlas project suggest that more prioritized candidate genes by DiSNEP are cancer-related.


Authors who are presenting talks have a * after their name.

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