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Comprehensive characterization of pathological stage-related genes of papillary thyroid cancer along with survival prediction |
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| Authors: | Lei Xu Feng Liu Haiyan Li Menglong Li Yongmei Xie Zhihui Li Yanzhi Guo |
| Institution: | 1. College of Chemistry, Sichuan University, Chengdu, China
Contribution: Data curation (equal), Formal analysis (equal), Methodology (equal), Software (equal), Validation (equal), Writing - original draft (equal);2. Department of Thyroid Surgery, West China Hospital of Sichuan University, Chengdu, China Contribution: Data curation (equal), ?Investigation (equal), Methodology (equal), Resources (equal), Supervision (equal);3. College of Chemistry, Sichuan University, Chengdu, China Contribution: Data curation (equal), Methodology (equal), Resources (equal);4. College of Chemistry, Sichuan University, Chengdu, China Contribution: Methodology (equal), Resources (equal), Validation (equal);5. Department of Thyroid Surgery, West China Hospital of Sichuan University, Chengdu, China Contribution: Data curation (equal), Methodology (equal), Resources (equal);6. Department of Thyroid Surgery, West China Hospital of Sichuan University, Chengdu, China;7. College of Chemistry, Sichuan University, Chengdu, China |
| Abstract: | It is crucial to understand the differences across papillary thyroid cancer (PTC) stages, so as to provide a basis for individualized treatments. Here, comprehensive function characterization of PTC stage-related genes was performed and a new prognostic signature was developed for advanced patients. Two gene modules were confirmed to be closely associated with PTC stages and further six hub genes were identified that yield excellent diagnostic efficiency between tumour and normal tissues. Genetic alteration analysis indicates that they are much conservative since mutations in the DNA of them rarely occur, but changes of DNA methylation on these six genes show that 12 DNA methylation sites are significantly associated with their corresponding genes' expression. Validation data set testing also suggests that these six stage-related hub genes would be probably potential biomarkers for marking four stages. Subsequently, a 21-mRNA-based prognostic risk model was constructed for PTC stage III/IV patients and it could effectively predict the survival of patients with strong prognostic ability. Functional analysis shows that differential expression genes between high- and low-risk patients would promote the progress of PTC to some extent. Moreover, tumour microenvironment (TME) of high-risk patients may be more conducive to tumour growth by ESTIMATE analysis. |
| Keywords: | hub gene papillary thyroid cancer prognostic risk model tumour stage |