MicroRNA related prognosis biomarkers from high throughput sequencing data of kidney renal clear cell carcinoma

BMC Medical Genomics

Yuan-Wu Liu¹  Xiao-Liang Xing²  Minjiang Huang²  Ti Zhang²  Qingyi Wu²  Zhi-Yong Yao²  Chaoqung Xing³ 

[1] Beijing Advanced Innovation Center for Food Nutrition and Human Health, China Agricultural University, 100193, Beijing, People’s Republic of China;Hunan University of Medicine, 418000, Huaihua, Hunan, People’s Republic of China;The First Affiliated Hospital of Hunan University of Medicine, 418000, Huaihua, Hunan, People’s Republic of China;

关键词: KIRC;    DEGs;    DEMs;    Overall survivals;    Biomarkers;   

DOI  :  10.1186/s12920-021-00932-z

来源: Springer

【 摘 要 】

BackgroundKidney renal clear cell carcinoma (KIRC) is the most common type of kidney cell carcinoma which has the worst overall survival rate. Almost 30% of patients with localized cancers eventually develop to metastases despite of early surgical treatment carried out. MicroRNAs (miRNAs) play a critical role in human cancer initiation, progression, and prognosis. The aim of our study was to identify potential prognosis biomarkers to predict overall survival of KIRC.MethodsAll data were downloaded from an open access database The Cancer Genome Atlas. DESeq2 package in R was used to screening the differential expression miRNAs (DEMs) and genes (DEGs). RegParallel and Survival packages in R was used to analysis their relationships with the KIRC patients. David version 6.8 and STRING version 11 were used to take the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis.ResultsWe found 2 DEGs (TIMP3 and HMGCS1) and 3 DEMs (hsa-miR-21-5p, hsa-miR-223-3p, and hsa-miR-365a-3p) could be prognosis biomarkers for the prediction of KIRC patients. The constructed prognostic model based on those 2 DEGs could effectively predict the survival status of KIRC. And the constructed prognostic model based on those 3 DEMs could effectively predict the survival status of KIRC in 3-year and 5-year.ConclusionThe current study provided novel insights into the miRNA related mRNA network in KIRC and those 2 DEGs biomarkers and 3 DEMs biomarkers may be independent prognostic signatures in predicting the survival of KIRC patients.

【 授权许可】

CC BY