Development and Validation of a Prognostic Model of RNA-Binding Proteins in Colon Adenocarcinoma: A Study Based on TCGA and GEO Databases

Abstract

Background: Previous studies reported that dysregulation of RNA-binding proteins (RBPs) is significantly associated with the development of cancer. However, there are few studies to date on the role of RBPs in colon adenocarcinoma (COAD). Methods: RNA sequencing and clinical data for COAD patients were downloaded from The Cancer Genome Atlas (TCGA) database to identify differentially expressed (DE) RBPs between COAD tissue and normal colon tissue, and then the expression and prognostic significance of these RBPs were investigated in detail by systematic bioinformatics analysis. qRT-PCR was used to validate the expressions of prognosis-related RBP-encoding genes. Results: Seven RBPs (RPL10L, ERI1, POP1, CAPRIN2, TDRD7, SNIP1 and PPARGC1A) were identified as hub genes associated with prognosis by a series of regression analyses, and were then used to construct a prognostic model. Further analysis based on this model indicated that the overall survival (OS) of the high-risk groups was lower than that of the low-risk groups. In this prognostic model, the area under the ROC curve (AUC) was 0.694, 0.709 and 0.665 for the TCGA cohort at 1, 3 and 5 years, respectively, while the AUC was 0.671, 0.633 and 0.601 for the GEO combined cohort at 1, 3 and 5 years, respectively, indicating the good predictive ability of the model. We also built a nomogram based on the 7 RBPs in the TCGA cohort, and the model showed good discriminatory ability for COAD. Conclusion:We screened seven prognosis-related genes in COAD patients based on RBPrelated genes, validated the expressions of the seven prognosis-related RBP-encoding genes by qRT-PCR and constructed a prognosis-related nomogram for patients with COAD.

Development and validation of a prognostic model for mitophagy-related genes in colon adenocarcinoma: A study based on TCGA and GEO databases

“…Studies have shown that PPARGC1A promotes breast cancer metastasis and is upregulated and promotes lung cancer metastasis [ 24 , 25 ]. Meanwhile, consistent with the present PCR and western blotting results, the expression of PPARGC1A is lower in COAD cells [ 26 ], showing that PPARGC1A plays an important role in tumors.…”

Establishment and verification of a prognostic model of liver cancer by RNA-binding proteins based on the TCGA database

“…The analysis of the enriched KEGG pathways showed that the upregulated genes are significantly enriched in spliceosome, RNA transport, mRNA surveillance pathway, ribosome, ribosome biogenesis in eukaryotes and RNA degradation, while the downregulated genes are significantly enriched in influenza A, RNA degradation, ribosome biogenesis in eukaryotes and hepatitis C. On this issue, there are similar conclusions in the research on colon cancer (34).…”

Clinical significance for diagnosis and prognosis of POP1 and its potential role in breast cancer: a comprehensive analysis based on multiple databases

“…In recent years, the potential of POP1 has been preliminarily elucidated. For example, Zhu et al found that POP1 was a novel prognostic marker of colorectal cancer through bioinformatics analysis [ 13 ]. Liang et al constructed a pyroptosis-related prognosis model for gastric cancer, in which POP1 was a gene in the model [ 14 ].…”