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Cell Biochem Biophys. 2018 Jun;76(1-2):161-172. doi: 10.1007/s12013-017-0837-y. Epub 2018 Jan 8.

A Biomolecular Network Driven Proteinic Interaction in HCV Clearance.

Author information

1
Department of Integrative Biology, School of Biosciences and Technology, VIT University, Vellore, Tamil Nadu, 632014, India.
2
Department of Integrative Biology, School of Biosciences and Technology, VIT University, Vellore, Tamil Nadu, 632014, India. jfebinprabhudass@vit.ac.in.

Abstract

Hepatitis C virus infection causes chronic liver disease that leads to cancer-related mortality. Presently around 30% of the HCV (infected) affected population get rid of the infection through spontaneous disease clearance. This phenomenon is conducted by a set of reported immune candidate genes. Hence, this study focuses only on these immune-response related genes with aid of network approach, where the idea is to disseminate the network for better understanding of key functional genes and their transcription control activity. Based on the network analysis the IFNG, TNF, IFNB1, STAT1, NFKB1, STAT3, SOCS1, and MYD88 genes are prioritized as hub genes along with their common transcription factors (TFs), IRF9, NFKB1, and STAT1. The dinucleotide frequency of TF binding elements indicated GG-rich motifs in these regulatory elements. On the other hand, gene enrichment report suggests the regulation of response to interferon gamma signaling pathway, which plays central role in the spontaneous HCV clearance. Therefore, our study tends to prioritize the genes, TFs, and their regulatory pathway towards HCV clearance. Even so, the resultant hub genes and their TFs and TF binding elements could be crucial in underscoring the clearance activity in specific populations.

KEYWORDS:

Dinucleotide frequency; HCV clearance candidate genes; Pathway enrichment; Protein–protein interaction network; Transcription factors

PMID:
29313175
DOI:
10.1007/s12013-017-0837-y
[Indexed for MEDLINE]

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