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• W3208159643 abstract "The development of reliable methods for identification of robust biomarkers for complex diseases is critical for disease diagnosis and prognosis efforts. Integrating multi-omics data with protein-protein interaction (PPI) networks to investigate diseases may help better understand disease characteristics at the molecular level. In this study, we developed and tested a novel network-based method to detect subnetwork markers for patients with colorectal cancer (CRC). We performed an integrated omics analysis using whole-genome gene expression profiling and copy number alterations (CNAs) datasets followed by building a gene interaction network for the significantly altered genes. We then clustered the constructed gene network into subnetworks and assigned a score for each significant subnetwork. We developed a support vector machine (SVM) classifier using these scores as feature values and tested the methodology in independent CRC transcriptomic datasets. The network analysis resulted in 15 subnetwork markers that revealed several hub genes that may play a significant role in colorectal cancer, including PTP4A3 , FGFR2 , PTX3 , AURKA , FEN1, INHBA , and YES1 . The 15-subnetwork classifier displayed over 98 percent accuracy in detecting patients with CRC. In comparison to individual gene biomarkers, subnetwork markers based on integrated multi-omics and network analyses may lead to better disease classification, diagnosis, and prognosis." @default.
• W3208159643 created "2021-11-08" @default.
• W3208159643 creator A5003463318 @default.
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• W3208159643 date "2021-11-01" @default.
• W3208159643 modified "2023-10-16" @default.
• W3208159643 title "A Network-Based Methodology to Identify Subnetwork Markers for Diagnosis and Prognosis of Colorectal Cancer" @default.
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• W3208159643 doi "https://doi.org/10.3389/fgene.2021.721949" @default.
• W3208159643 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/8591094" @default.
• W3208159643 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/34790220" @default.
• W3208159643 hasPublicationYear "2021" @default.
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