Proteomic profiling of oral squamous cell carcinoma tissues altered-related proteins: implications for personalized therapy.

IF 3.8 3区生物学 Q1 BIOCHEMICAL RESEARCH METHODS

Expert Review of Proteomics Pub Date : 2024-11-11 DOI:10.1080/14789450.2024.2428332

Akhina Palollathil, Sreeranjini Babu, Chandran S Abhinand, Rohan Thomas Mathew, Manavalan Vijayakumar, Thottethodi Subrahmanya Keshava Prasad

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引用次数: 0

Abstract

Objectives: Oral squamous cell carcinoma poses a substantial global health challenge marked by rising mortality rate. Recently, immunotherapy has shown promising results in cancer management by enhancing immune response. Thus, identifying additional immune-related markers is critical for advancing immunotherapy treatments.

Methods: Data-independent acquisition mass spectrometry approach was used to explore differentially expressed immune-related proteins in oral cancer tissues compared to adjacent non-cancerous tissues. Functional significance was identified through Gene Ontology, pathway, and network analysis. Gene expression of identified proteins was validated using transcriptomic data.

Results: DIA analysis identified 29,459 precursors corresponding to 3429 proteins. Among these, 1060 proteins were differentially expressed, with 166 being immune-related. Differentially regulated proteins were involved in innate immune response, mitochondrial ATP synthesis, and neutrophil degranulation. Pathway analysis of immune-related proteins showed perturbation in anti-tumor immunity-related pathways such as interferon signaling, TCR signaling, PD-1 signaling and antigen processing and presentation. Significance of these pathways was further reinforced by the strong interactions identified in the protein-protein interaction network analysis. Additionally, gene expression analysis showed similar mRNA expression patterns for key proteins involved in altered pathways, including ISG15, IFIT1/3, HLA-A/C and OAS2/3.

Conclusions: Further validation of these proteins could establish them as potential targets for personalized therapy.

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口腔鳞状细胞癌组织改变相关蛋白的蛋白质组学分析：对个性化治疗的影响

目的：口腔鳞状细胞癌死亡率不断上升，对全球健康构成了巨大挑战。最近，免疫疗法通过增强免疫反应在癌症治疗中显示出了良好的效果。因此，确定更多的免疫相关标记物对于推进免疫疗法治疗至关重要：方法：采用独立于数据采集的质谱方法，探索口腔癌组织中与邻近非癌组织相比有差异表达的免疫相关蛋白。通过基因本体、通路和网络分析确定其功能意义。利用转录组数据验证了所鉴定蛋白质的基因表达：结果：DIA 分析确定了 29,459 个前体，对应 3429 个蛋白质。其中，1060 个蛋白质表达不同，166 个与免疫相关。受差异调控的蛋白质涉及先天性免疫反应、线粒体 ATP 合成和中性粒细胞脱颗粒。免疫相关蛋白的通路分析表明，干扰素信号、TCR 信号、PD-1 信号以及抗原处理和递呈等抗肿瘤免疫相关通路受到了干扰。在蛋白质-蛋白质相互作用网络分析中发现的强相互作用进一步加强了这些通路的重要性。此外，基因表达分析表明，参与改变通路的关键蛋白（包括 ISG15、IFIT1/3、HLA-A/C 和 OAS2/3）的 mRNA 表达模式相似：结论：对这些蛋白质的进一步验证可将其确立为个性化治疗的潜在靶点。

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

Expert Review of Proteomics 生物-生化研究方法

CiteScore

7.60

自引率

0.00%

发文量

审稿时长

6-12 weeks

期刊介绍： Expert Review of Proteomics (ISSN 1478-9450) seeks to collect together technologies, methods and discoveries from the field of proteomics to advance scientific understanding of the many varied roles protein expression plays in human health and disease. The journal coverage includes, but is not limited to, overviews of specific technological advances in the development of protein arrays, interaction maps, data archives and biological assays, performance of new technologies and prospects for future drug discovery. The journal adopts the unique Expert Review article format, offering a complete overview of current thinking in a key technology area, research or clinical practice, augmented by the following sections: Expert Opinion - a personal view on the most effective or promising strategies and a clear perspective of future prospects within a realistic timescale Article highlights - an executive summary cutting to the author''s most critical points.