Identification and expression of prognostic-related genes in kidney renal clear cell carcinoma and their possible regulatory mechanisms.

IF 1.9 3区医学 Q4 ANDROLOGY

Translational andrology and urology Pub Date : 2024-08-31 Epub Date: 2024-08-26 DOI:10.21037/tau-24-299

Qian Liu, Jun Ding

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引用次数: 0

Abstract

Background: Many factors affect the prognosis of kidney renal clear cell carcinoma (KIRC). Early diagnosis can significantly improve the prognosis of KIRC patients. Therefore, a method needs to be developed to diagnose KIRC early, predict patient prognosis, and improve personalized treatments. The objective of this study is to utilize bioinformatics tools and public database resources to identify differentially expressed genes (DEGs) between renal cancer tissues and adjacent normal tissues, and to further screen for prognostic-related genes (PRGs) of KIRC.

Methods: KIRC was studied using R language and FunRich software and several databases, including the Gene Expression Omnibus (GEO), The Cancer Genome Atlas (TCGA), the University of Alabama at Birmingham cancer data analysis Portal (UALCAN), and Tumor Immune Estimation Resource (TIMER) databases. Moreover, quantitative real-time polymerase chain reaction (qRT-PCR) was used to validate the expression of multiple genes in KIRC and adjacent normal tissues.

Results: There were substantial differences in immune cell infiltration between the KIRC and adjacent normal tissues in the GSE40435 and GSE46699 datasets. In addition, we screened multiple PRGs of KIRC by combining the GEO and TCGA data. The UALCAN database verified that some representative PRGs were differently expressed depending on the lymph node metastasis status, grade, and stage of KIRC. The qRT-PCR results confirmed the expression of the PRGs in KIRC and adjacent normal tissues. Through the GO and KEGG analyses, interaction analysis, and TIMER database, we found that the prognosis of KIRC was closely related to immune microenvironment and vascular endothelial growth factor (VEGF)/VEGF receptor (VEGFR) signaling.

Conclusions: Our findings could contribute to the prognosis prediction of KIRC, the selection of personalized treatments, and the early diagnosis of KIRC.

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肾透明细胞癌预后相关基因的鉴定和表达及其可能的调控机制

背景：影响肾透明细胞癌（KIRC）预后的因素很多。早期诊断可明显改善 KIRC 患者的预后。因此，需要开发一种方法来早期诊断 KIRC、预测患者预后并改善个性化治疗。本研究旨在利用生物信息学工具和公共数据库资源，鉴定肾癌组织与邻近正常组织之间的差异表达基因（DEGs），并进一步筛选 KIRC 的预后相关基因（PRGs）：使用 R 语言和 FunRich 软件以及多个数据库（包括基因表达总库（GEO）、癌症基因组图谱（TCGA）、阿拉巴马大学伯明翰分校癌症数据分析门户网站（UALCAN）和肿瘤免疫估算资源（TIMER）数据库）对 KIRC 进行了研究。此外，还使用定量实时聚合酶链反应（qRT-PCR）验证了 KIRC 和邻近正常组织中多个基因的表达：结果：在 GSE40435 和 GSE46699 数据集中，KIRC 和邻近正常组织的免疫细胞浸润存在很大差异。此外，我们还结合 GEO 和 TCGA 数据筛选了 KIRC 的多个 PRGs。UALCAN 数据库验证了一些具有代表性的 PRGs 因 KIRC 的淋巴结转移状态、分级和分期而有不同的表达。qRT-PCR 结果证实了 PRGs 在 KIRC 和邻近正常组织中的表达。通过GO和KEGG分析、相互作用分析以及TIMER数据库，我们发现KIRC的预后与免疫微环境和血管内皮生长因子（VEGF）/血管内皮生长因子受体（VEGFR）信号转导密切相关：我们的研究结果有助于预测 KIRC 的预后、选择个性化治疗方法以及早期诊断 KIRC。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Translational andrology and urology Medicine-Urology

CiteScore

4.10

自引率

5.00%

发文量

期刊介绍： ranslational Andrology and Urology (Print ISSN 2223-4683; Online ISSN 2223-4691; Transl Androl Urol; TAU) is an open access, peer-reviewed, bi-monthly journal (quarterly published from Mar.2012 - Dec. 2014). The main focus of the journal is to describe new findings in the field of translational research of Andrology and Urology, provides current and practical information on basic research and clinical investigations of Andrology and Urology. Specific areas of interest include, but not limited to, molecular study, pathology, biology and technical advances related to andrology and urology. Topics cover range from evaluation, prevention, diagnosis, therapy, prognosis, rehabilitation and future challenges to urology and andrology. Contributions pertinent to urology and andrology are also included from related fields such as public health, basic sciences, education, sociology, and nursing.