通过多组学和基于网络的方法研究与丝裂吞噬相关的预后基因在非小细胞癌发病机制中的作用。

IF 2.6 4区 生物学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY
3 Biotech Pub Date : 2024-11-01 Epub Date: 2024-10-21 DOI:10.1007/s13205-024-04127-y
Prithvi Singh, Gulnaz Tabassum, Mohammad Masood, Saleha Anwar, Mansoor Ali Syed, Kapil Dev, Md Imtaiyaz Hassan, Mohammad Mahfuzul Haque, Ravins Dohare, Indrakant Kumar Singh
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引用次数: 0

摘要

作为最常见的恶性肿瘤之一,肺癌在分子和临床特征方面都表现出相当大的生物差异性。肺癌大致分为小细胞肺癌(SCLC)和非小细胞肺癌(NSCLC),后者最为常见。非小细胞肺癌的主要组织学亚型是肺腺癌(LUAD)和肺鳞癌(LUSC)。在本研究中,我们首先从一个可公开访问的数据库中提取了 mRNA 计数数据,然后对 LUAD 和 LUSC 队列中的差异表达基因(DEGs)和差异表达有丝分裂相关基因(DEMRGs)进行了鉴定。接下来,我们通过聚类方法确定了重要的 DEMRGs,然后进行了富集、生存和突变分析。最后,我们通过湿实验室实验对最终确定的预后生物标志物进行了验证。首先,我们在 LUAD 和 LUSC 队列中分别获得了 986 个和 1714 个 DEGs。聚类分析显示,两个队列中只有 7 个 DEMRGs 具有显著的成员值。最重要的通路、基因本体(GO)-生物过程(BP)、GO-分子功能(MF)、GO-细胞区室(CC)术语是大自噬、GTP 代谢过程、镁离子结合、线粒体外膜。其中,只有 TDRKH 在 LUAD 患者的总生存率(OS)和 14% 的扩增率方面具有显著性。最后,我们通过免疫组化(IHC)和半定量聚合酶链反应(PCR)对 TDRKH 进行了验证。总之,我们的研究结果主张在LUAD的肿瘤精准治疗方法中探索TDRKH及其基因改变,强调靶向驱动治疗和早期诊断的潜力:在线版本包含补充材料,可在 10.1007/s13205-024-04127-y.获取。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Investigating the role of prognostic mitophagy-related genes in non-small cell cancer pathogenesis via multiomics and network-based approach.

As one of the most prevalent malignancies, lung cancer displays considerable biological variability in both molecular and clinical characteristics. Lung cancer is broadly categorized into small cell lung cancer (SCLC) and non-small cell lung cancer (NSCLC) with the latter being most prevalent. The primary histological subtypes of NSCLC are lung adenocarcinoma (LUAD) and lung squamous cell carcinoma (LUSC). In the present work, we primarily extracted mRNA count data from a publicly accessible database followed by differentially expressed genes (DEGs) and differentially expressed mitophagy-related genes (DEMRGs) identification in case of both LUAD and LUSC cohorts. Next, we identified important DEMRGs via clustering approach followed by enrichment, survival, and mutational analyses. Lastly, the finalized prognostic biomarker was validated using wet-lab experimentations. Primarily, we obtained 986 and 1714 DEGs across LUAD and LUSC cohorts. Only 7 DEMRGs from both cohorts had significant membership values as indicated by the clustering analysis. Most significant pathway, Gene Ontology (GO)-biological process (BP), GO-molecular function (MF), GO-cellular compartment (CC) terms were macroautophagy, GTP metabolic process, magnesium ion binding, mitochondrial outer membrane. Among all, only TDRKH reported significant overall survival (OS) and 14% amplification across LUAD patients. Lastly, we validated TDRKH via immunohistochemistry (IHC) and semi-quantitative polymerase chain reaction (PCR). In conclusion, our findings advocate for the exploration of TDRKH and their genetic alterations in precision oncology therapeutic approaches for LUAD, emphasizing the potential for target-driven therapy and early diagnostics.

Supplementary information: The online version contains supplementary material available at 10.1007/s13205-024-04127-y.

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来源期刊
3 Biotech
3 Biotech Agricultural and Biological Sciences-Agricultural and Biological Sciences (miscellaneous)
CiteScore
6.00
自引率
0.00%
发文量
314
期刊介绍: 3 Biotech publishes the results of the latest research related to the study and application of biotechnology to: - Medicine and Biomedical Sciences - Agriculture - The Environment The focus on these three technology sectors recognizes that complete Biotechnology applications often require a combination of techniques. 3 Biotech not only presents the latest developments in biotechnology but also addresses the problems and benefits of integrating a variety of techniques for a particular application. 3 Biotech will appeal to scientists and engineers in both academia and industry focused on the safe and efficient application of Biotechnology to Medicine, Agriculture and the Environment.
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