Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy

Abstract

Malignancies of alimentary tract include esophageal carcinoma (ESCA), stomach adenocarcinoma (STAD), colon adenocarcinoma (COAD), and rectum adenocarcinoma (READ). Despite of their similarities in cancer development and progression, there are numerous researches concentrating on single tumor but relatively little on their common mechanisms. Our study explored the transcriptomic data of digestive tract cancers from The Cancer Genome Atlas database, yielding their common differentially expressed genes including 1,700 mRNAs, 29 miRNAs, and 362 long non-coding RNAs (lncRNAs). There were 12 mRNAs, 5 miRNAs, and 16 lncRNAs in the core competitive endogenous RNAs network by RNA-RNA interactions, highlighting the prognostic nodes of SERPINE1, hsa-mir-145, and SNHG1. In addition, the weighted gene co-expression network analysis (WGCNA) illustrated 20 gene modules associated with clinical traits. By taking intersections of modules related to the same trait, we got 67 common genes shared by ESCA and READ and screened 5 hub genes, including ADCY6, CXCL3, NPBWR1, TAS2R38, and PTGDR2. In conclusion, the present study found that SERPINE1/has-mir-145/SNHG1 axis acted as promising targets and the hub genes reasoned the similarity between ESCA and READ, which revealed the homogeneous tumorigenicity of digestive tract cancers at the transcriptome level and led to further comprehension and therapeutics for digestive tract cancers.

WGCNA identification of TLR7 as a novel diagnostic biomarker, progression and prognostic indicator, and immunotherapeutic target for stomach adenocarcinoma

“…20 In 2021, Lu uncovered the homogeneous tumorigenicity of the alimentary canal, and the SERPINE1/hsa-mir-145/SNHG1 axis was identified as a potential prognostic indicator and the therapeutic target of alimentary canal malignancies via WGCNA using the TCGA database. 21 Compared to multiple analyses of the TCGA STAD cohort via WGCNA, there is an absence of the GEO STAD cohort for WGCNA. In this study, we selected GEO datasets with clinical features, including the STAD stage and grade.…”

Effect of Aging-Related Genes on the Prognosis of Colon Cancer

“…The encoded product of SERPINE1 is plasminogen activator inhibitor 1, which has the effect of inhibiting brinolysis. SERPINE is signi cantly related to the poor prognosis of head and neck cancer, glioma, gastric cancer, and colon cancer (51)(52)(53). In colon cancer, the expression of SERPINE1 is up-regulated, which is related to the aggressiveness of the tumor.…”

Advances in PGD2/PTGDR2 signaling pathway in tumors: A review

“…In addition, the microarray data analysis of 875 gastric cancer patients indicated that upregulation of PTGDR2 expression was significantly associated with a better prognosis. Lu et al screened five key genes, including PTGDR2, CXCL3, NPBWR1, TAS2R38, and ADCY6, and their correlation with gastrointestinal tumor grades, related histological types, and patient age was assessed via the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) database [77]. Wang et al studied a cohort of 123 triple-negative breast cancer (TNBC) in addition to gastric cancer and constructed a column plot model using PTGDR2, which predicted the 1-5 year overall survival (OS) rate of these patients.…”