scholarly journals Prognostic Significance of Autophagy-Relevant Gene Markers in Colorectal Cancer

2021 ◽  
Vol 11 ◽  
Author(s):  
Qinglian He ◽  
Ziqi Li ◽  
Jinbao Yin ◽  
Yuling Li ◽  
Yuting Yin ◽  
...  
Keyword(s):  
Colorectal Cancer ◽  
Risk Assessment ◽  
Receiver Operating Characteristic ◽  
Signaling Pathways ◽  
Prognostic Model ◽  
Operating Characteristic ◽  
Assessment Model ◽  
Differentially Expressed ◽  
Risk Assessment Model ◽  
Kegg Analysis

BackgroundColorectal cancer (CRC) is a common malignant solid tumor with an extremely low survival rate after relapse. Previous investigations have shown that autophagy possesses a crucial function in tumors. However, there is no consensus on the value of autophagy-associated genes in predicting the prognosis of CRC patients. This work screens autophagy-related markers and signaling pathways that may participate in the development of CRC, and establishes a prognostic model of CRC based on autophagy-associated genes.MethodsGene transcripts from the TCGA database and autophagy-associated gene data from the GeneCards database were used to obtain expression levels of autophagy-associated genes, followed by Wilcox tests to screen for autophagy-related differentially expressed genes. Then, 11 key autophagy-associated genes were identified through univariate and multivariate Cox proportional hazard regression analysis and used to establish prognostic models. Additionally, immunohistochemical and CRC cell line data were used to evaluate the results of our three autophagy-associated genes EPHB2, NOL3, and SNAI1 in TCGA. Based on the multivariate Cox analysis, risk scores were calculated and used to classify samples into high-risk and low-risk groups. Kaplan-Meier survival analysis, risk profiling, and independent prognosis analysis were carried out. Receiver operating characteristic analysis was performed to estimate the specificity and sensitivity of the prognostic model. Finally, GSEA, GO, and KEGG analysis were performed to identify the relevant signaling pathways.ResultsA total of 301 autophagy-related genes were differentially expressed in CRC. The areas under the 1-year, 3-year, and 5-year receiver operating characteristic curves of the autophagy-based prognostic model for CRC were 0.764, 0.751, and 0.729, respectively. GSEA analysis of the model showed significant enrichment in several tumor-relevant pathways and cellular protective biological processes. The expression of EPHB2, IL-13, MAP2, RPN2, and TRAF5 was correlated with microsatellite instability (MSI), while the expression of IL-13, RPN2, and TRAF5 was related to tumor mutation burden (TMB). GO analysis showed that the 11 target autophagy genes were chiefly enriched in mRNA processing, RNA splicing, and regulation of the mRNA metabolic process. KEGG analysis showed enrichment mainly in spliceosomes. We constructed a prognostic risk assessment model based on 11 autophagy-related genes in CRC.ConclusionA prognostic risk assessment model based on 11 autophagy-associated genes was constructed in CRC. The new model suggests directions and ideas for evaluating prognosis and provides guidance to choose better treatment strategies for CRC.

scholarly journals Gene expression and DNA methylation analyses suggest that two immune related genes are prognostic factors of colorectal cancer

2021 ◽  
Vol 14 (1) ◽  
Author(s):  
Xiao-Liang Xing ◽  
Zhi-Yong Yao ◽  
Chaoqun Xing ◽  
Zhi Huang ◽  
Jing Peng ◽  
...  
Keyword(s):  
Gene Expression ◽  
Colorectal Cancer ◽  
Risk Assessment ◽  
Dna Methylation ◽  
Differentially Expressed Genes ◽  
Risk Score ◽  
Immune Cells ◽  
Assessment Model ◽  
Differentially Expressed ◽  
Risk Assessment Model

Abstract Background Colorectal cancer (CRC) is the second most prevalent cancer, as it accounts for approximately 10% of all annually diagnosed cancers. Studies have indicated that DNA methylation is involved in cancer genesis. The purpose of this study was to investigate the relationships among DNA methylation, gene expression and the tumor-immune microenvironment of CRC, and finally, to identify potential key genes related to immune cell infiltration in CRC. Methods In the present study, we used the ChAMP and DESeq2 packages, correlation analyses, and Cox regression analyses to identify immune-related differentially expressed genes (IR-DEGs) that were correlated with aberrant methylation and to construct a risk assessment model. Results Finally, we found that HSPA1A expression and CCRL2 expression were positively and negatively associated with the risk score of CRC, respectively. Patients in the high-risk group were more positively correlated with some types of tumor-infiltrating immune cells, whereas they were negatively correlated with other tumor-infiltrating immune cells. After the patients were regrouped according to the median risk score, we could more effectively distinguish them based on survival outcome, clinicopathological characteristics, specific tumor-immune infiltration status and highly expressed immune-related biomarkers. Conclusion This study suggested that the risk assessment model constructed by pairing immune-related differentially expressed genes correlated with aberrant DNA methylation could predict the outcome of CRC patients and might help to identify those patients who could benefit from antitumor immunotherapy.

scholarly journals A Study on RB-XGBoost Algorithm-Based e-Commerce Credit Risk Assessment Model

2021 ◽  
Vol 2021 ◽  
pp. 1-8
Author(s):  
Weimin Yang ◽  
Lili Gao
Keyword(s):  
Risk Assessment ◽  
Credit Risk ◽  
Index System ◽  
Operating Characteristic ◽  
Evaluation Index System ◽  
Assessment Model ◽  
Risk Assessment Model ◽  
Assessment Index ◽  
Credit Risk Assessment ◽  
Assessment Index System

The current method’s e-commerce credit risk assessment is prone to poor data balance and low evaluation accuracy. An RB-XGBoost algorithm-based e-commerce credit risk assessment model is proposed in this study. The adaptive random balance (RB) method is used to sample and process the obtained data to improve the balance degree of the data. An assessment index system is constructed based on the processed data. Based on the risk evaluation index system and the XGBoost algorithm, this paper constructed an e-commerce risk assessment model and assessed the e-commerce credit risk using this model. The experimental results show that the proposed method has good data balance, a high kappa coefficient, and a large receiver operating characteristic (ROC) curve area, which can effectively improve e-commerce credit risk assessment accuracy.

scholarly journals Immune-Related Gene Expression Analysis Revealed Three lncRNAs as Prognostic Factors for Colon Cancer

2021 ◽  
Vol 12 ◽  
Author(s):  
Xiao-Liang Xing ◽  
Ti Zhang ◽  
Zhi-Yong Yao ◽  
Chaoqun Xing ◽  
Chunxiao Wang ◽  
...  
Keyword(s):  
Risk Assessment ◽  
Gene Expression Analysis ◽  
Operating Characteristic ◽  
Cox Regression ◽  
Area Under The Curve ◽  
Assessment Model ◽  
Risk Assessment Model ◽  
Immune Related Gene ◽  
Non Coding Rnas

Colorectal cancer (CRC) is one of the most common cancers. Almost 80% of CRC cases are colon adenocarcinomas (COADs). Several studies have indicated the role of immunotherapy in the treatment of various cancers. Our study aimed to identify immune-related long non-coding RNAs (lncRNAs) and to use them to construct a risk assessment model for evaluating COAD prognosis. Using differential expression, correlation, and Cox regression analyses, we identified three immune-related differentially expressed lncRNAs (IR-DELs) and used them to construct a risk assessment model. The area under the curve (AUC) for each receiver operating characteristic (ROC) curve at 3-, 5-, and 10-years were greater than 0.6. In addition, the risk assessment model was correlated with several immune cells and factors. The three IR-DELs (AC124067.4, LINC02604, and MIR4435-2HG) identified in this study can be used to predict outcomes for patients with COAD and might help in identifying those who can benefit from anti-tumor immunotherapy.

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