Gastric cancer biomarkers; A systems biology approach

Abstract

Gastric cancer is one of the most fatal cancers in the world. Many efforts in recent years have attempted to find effective proteins in gastric cancer. By using a comprehensive list of proteins involved in gastric cancer, scientists were able to retrieve interaction information. The study of protein-protein interaction networks through systems biology based analysis provides appropriate strategies to discover candidate proteins and key biological pathways.In this study, we investigated dominant functional themes and centrality parameters including betweenness as well as the degree of each topological clusters and expressionally active sub-networks in the resulted network. The results of functional analysis on gene sets showed that neurotrophin signaling pathway, cell cycle and nucleotide excision possess the strongest enrichment signals. According to the computed centrality parameters, HNF4A, TAF1 and TP53 manifested as the most significant nodes in the interaction network of the engaged proteins in gastric cancer. This study also demonstrates pathways and proteins that are applicable as diagnostic markers and therapeutic targets for future attempts to overcome gastric cancer.

Knockdown of LINC00511 promotes radiosensitivity of thyroid carcinoma cells via suppressing JAK2/STAT3 signaling pathway

“…13 And TATA-box binding protein-associated factor 1 (TAF1) is the main component of TFIID and ubiquitous in thyroid. TAF1 has been previously defined as potential markers in gastric cancer, 14 hepatocellular carcinoma 15 and triplenegative breast cancer, 16 but the existence of TAF1 in thyroid carcinoma is untold.…”

Identification of circRNA Biomarker for Gastric Cancer through Integrated Analysis

“…The PI3K-Akt signaling pathway plays an important role in the development and progression of GC ( Matsuoka and Yashiro, 2014 ). And a stronger enrichment of cell cycle pathway is found in GC ( Saberi Anvar et al, 2018 ).…”

Systems Biology of Gastric Cancer: Perspectives on the Omics-Based Diagnosis and Treatment

“…With the over-expression or under-expression profiles of the DEGs, the related biological pathways are associated with cancer status or stage by pathway enrichment analysis approaches such as gene set enrichment analysis ( Subramanian et al, 2005 ; Buzdin et al, 2017 ). The DEG-based pathway analysis approach had been successfully applied to identify potential biomarkers distinguishing gastric cancer with normal controls samples using the transcriptomics, proteomics or metabolomics data ( Anvar et al, 2018 ). Nevertheless, DEG-based approach still has a number of limitations, restricting its use in clinics.…”