基于癌症基因组图谱数据库,我们开发了一个RNA结合蛋白在胃腺癌中的预后模型。
Based on the Cancer Genome Atlas Database Development of a prognostic model of RNA binding protein in stomach adenocarcinoma.
发表日期:2023 Jul 31
作者:
Sayed Haidar Abbas Raza, Ruimin Zhong, Shen Xing, Xiaoting Yu, Liang Chengcheng, Linsen Zan, Nicola M Schreurs, Sameer D Pant, Hongtao Lei
来源:
COMPUTERS IN BIOLOGY AND MEDICINE
摘要:
本研究的目的是鉴定与胃腺癌生存相关的潜在RNA结合蛋白,并研究这些RNA结合蛋白的相关生物特性和信号通路。我们从癌症基因组图谱(N = 32,T = 375)和综合基因表达数据库(GSE84437,N = 433)获取了RNA测序和临床数据。将The Cancer Genome Atlas中的样本随机分成开发组和测试组。共提取了1495个与RNA结合蛋白相关的基因。使用非参数检验分析RNA结合蛋白相关基因的差异,得到296个差异性RNA结合蛋白,166个上调,130个下调。使用Cox回归筛选出了20个与预后相关的RNA结合蛋白,包括14个高风险基因(风险比 > 1.0)和6个低风险基因(风险比 < 1.0)。最终从预后模型中筛选出了7个与RNA结合蛋白相关的基因,并用它们构建了一个新的预后模型。使用开发组和测试组对该模型进行了生存分析、受试者工作特征曲线和预后分析曲线验证。最终开发了一种预测诊断图谱,并表现出良好的预测性能。版权所有© 2023 Elsevier Ltd. 保留所有权利。
The purpose of this study was to identify potential RNA binding proteins associated with the survival of gastric adenocarcinoma, as well as the corresponding biological characteristics and signaling pathways of these RNA binding proteins. RNA sequencing and clinical data were obtained from the cancer genome map (N = 32, T = 375) and the comprehensive gene expression database (GSE84437, N = 433). The samples in The Cancer Genome Atlas were randomly divided into a development group and a test group. A total of 1495 RNA binding protein related genes were extracted. Using nonparametric tests to analyze the difference of RNA binding protein related genes, 296 differential RNA binding proteins were obtained, 166 were up-regulated and 130 were down regulated. Twenty prognosis-related RNA binding proteins were screened using Cox regression, including 14 high-risk genes (hazard ratio > 1.0) and 6 low-risk genes (hazard ratio < 1.0). Seven RNA binding protein related genes were screened from the final prognostic model and used to construct a new prognostic model. Using the development group and test group, the model was verified with survival analysis, receiver operating characteristics curves and prognosis analysis curves. A prediction nomogram was finally developed and showed good prediction performance.Copyright © 2023 Elsevier Ltd. All rights reserved.