Revealing immune infiltrate characteristics and potential diagnostic value of immune-related genes in ulcerative colitis: An integrative genomic analysis.
Revealing immune infiltrate characteristics and potential diagnostic value of immune-related genes in ulcerative colitis: An integrative genomic analysis.
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DOI：
10.3389/fpubh.2022.1003002
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发表时间：
2022
影响因子：
5.2
通讯作者：
Tang, Xudong
中科院分区：
文献类型：
--
作者：
Huang, Jinke;Zhang, Jiaqi;Wang, Fengyun;Zhang, Beihua;Tang, Xudong
溃疡性结肠炎（UC）是一种自身免疫性结肠疾病。本研究的目的是探讨UC患者免疫浸润的特点，并确定免疫相关的UC诊断生物标志物。从GEO数据库中获得三个基因表达谱，然后通过微阵列数据的线性建模鉴定差异表达基因（DEG）。对基因本体（GO）、京都基因和基因组百科全书（KEGG）和疾病本体（DO）进行富集分析，以分析DEG的生物学功能。随后，进行单样本基因集富集分析（ssGSEA）以鉴定UC的免疫浸润特征。探索诊断基因和免疫浸润之间的相关性，以确定具有最大诊断潜力的标记物，并随后构建UC诊断模型。最后，通过诺模图、非相关诺模图和ROC曲线对模型的预测性能进行量化。共鉴定了3111个DEG（1，608个上调基因和1，503个下调基因）。DEG显著参与免疫系统和UC相关途径。正常人和UC患者结肠组织的免疫浸润特征有显著差异。在UC样品中发现高比例的静息aDC、B细胞、CD8+ T细胞、DC、iDC、巨噬细胞、嗜中性粒细胞、pDC、T辅助细胞、Tfh、Th1细胞、Th2细胞、TIL和Treg。构建了基于5个基因的诊断预测模型，诺模图、非相关诺模图和ROC曲线的结果表明该模型具有较强的诊断价值。本研究确定了UC的免疫浸润特征和5个免疫相关基因。基于免疫相关基因的模型有助于UC的早期诊断，并为UC的预后评估提供依据。
Ulcerative colitis (UC) is an autoimmune disease of the colon. The aim of this study was to explore the characteristics of immune infiltrates in UC patients and identify immune-related diagnostic biomarkers for UC. Three gene expression profiles were acquired from the GEO database, followed by identification of differentially expressed genes (DEGs) by Linear Modeling of Microarray Data. Enrichment analysis of Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) and Disease Ontology (DO) were performed to analyze the biological functions of DEGs. Subsequently, the single sample gene set enrichment analysis (ssGSEA) was performed to identify immune infiltration characteristics of UC. Correlations between diagnostic genes and immune infiltration were explored to identify markers with the greatest diagnostic potential, and a UC diagnostic model was subsequently constructed. Finally, the prediction performance of the model was quantified by nomogram, non-correlated nomogram, and ROC curve. A total of 3111 DEGs (1,608 up-regulated and 1,503 down-regulated genes) were identified. DEGs were significantly involved in the immune system and UC-related pathways. Immune infiltration profiles of colonic tissue were significantly different between healthy individuals and UC patients. High proportions of resting of aDCs, B cells, CD8+ T cells, DCs, iDCs, Macrophages, Neutrophils, pDCs, T helper cells, Tfh, Th1 cells, Th2 cells, TIL and Treg were found in UC samples. A 5-gene based diagnostic prediction model was constructed and the results of nomogram, non-correlated nomogram and ROC curve suggested the powerful diagnostic value of the model. This study identified the immune infiltrate characteristics and 5 immune-related genes for UC. The model based on the immune-related genes facilitates the early diagnosis of UC and provides a basis for the evaluation of the prognosis of UC.
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