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Prognostic value of genomic mutation signature associated with immune microenvironment in southern Chinese patients with esophageal squamous cell carcinoma

The genomic landscape of esophageal squamous cell cancer (ESCC), as well as its impact on the regulation of immune microenvironment, is not well understood. Thus, tumor samples from 92 patients were collected from two centers and subjected to targeted-gene sequencing. We identified frequently mutate...

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Published in:Cancer Immunology, Immunotherapy : CII Immunotherapy : CII, 2024-06, Vol.73 (8), p.141, Article 141
Main Authors: Zhou, Yue, Chu, Li, Li, Shuyan, Chu, Xiao, Ni, Jianjiao, Jiang, Shanshan, Pang, Yechun, Zheng, Danru, Lu, Yujuan, Lan, Fangcen, Cai, Xiuyu, Yang, Xi, Zhu, Zhengfei
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container_title Cancer Immunology, Immunotherapy : CII
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creator Zhou, Yue
Chu, Li
Li, Shuyan
Chu, Xiao
Ni, Jianjiao
Jiang, Shanshan
Pang, Yechun
Zheng, Danru
Lu, Yujuan
Lan, Fangcen
Cai, Xiuyu
Yang, Xi
Zhu, Zhengfei
description The genomic landscape of esophageal squamous cell cancer (ESCC), as well as its impact on the regulation of immune microenvironment, is not well understood. Thus, tumor samples from 92 patients were collected from two centers and subjected to targeted-gene sequencing. We identified frequently mutated genes, including TP53, KMT2C, KMT2D, LRP1B, and FAT1. The most frequent mutation sites were ALOX12B (c.1565C >  T ), SLX4 (c.2786C >  T ), LRIG1 (c.746A >  G ), and SPEN (c.6915_6917del) (6.5%). Pathway analysis revealed dysregulation of cell cycle regulation, epigenetic regulation, PI3K/AKT signaling, and NOTCH signaling. A 17-mutated gene-related risk model was constructed using random survival forest analysis and showed significant prognostic value in both our cohort and the validation cohort. Based on the Estimation of Stromal and Immune cells in Malignant Tumor tissues using Expression (ESTIMATE) algorithm, the Tumor Immune Dysfunction and Exclusion (TIDE) algorithm, and the MCPcounter algorithm, we found that the risk score calculated by the risk model was significantly correlated with stimulatory immune checkpoints (TNFSF4, ITGB2, CXCL10, CXCL9, and BTN3A1; p  
doi_str_mv 10.1007/s00262-024-03725-2
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Thus, tumor samples from 92 patients were collected from two centers and subjected to targeted-gene sequencing. We identified frequently mutated genes, including TP53, KMT2C, KMT2D, LRP1B, and FAT1. The most frequent mutation sites were ALOX12B (c.1565C &gt;  T ), SLX4 (c.2786C &gt;  T ), LRIG1 (c.746A &gt;  G ), and SPEN (c.6915_6917del) (6.5%). Pathway analysis revealed dysregulation of cell cycle regulation, epigenetic regulation, PI3K/AKT signaling, and NOTCH signaling. A 17-mutated gene-related risk model was constructed using random survival forest analysis and showed significant prognostic value in both our cohort and the validation cohort. Based on the Estimation of Stromal and Immune cells in Malignant Tumor tissues using Expression (ESTIMATE) algorithm, the Tumor Immune Dysfunction and Exclusion (TIDE) algorithm, and the MCPcounter algorithm, we found that the risk score calculated by the risk model was significantly correlated with stimulatory immune checkpoints (TNFSF4, ITGB2, CXCL10, CXCL9, and BTN3A1; p  &lt; 0.05). Additionally, it was significantly associated with markers that are important in predicting response to immunotherapy (CD274, IFNG, and TAMM2; p  &lt; 0.05). Furthermore, the results of immunofluorescence double staining showed that patients with high risk scores had a significantly higher level of M2 macrophage than those with low risk scores ( p  &lt; 0.05). 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The Author(s).</rights><rights>The Author(s) 2024. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). 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Thus, tumor samples from 92 patients were collected from two centers and subjected to targeted-gene sequencing. We identified frequently mutated genes, including TP53, KMT2C, KMT2D, LRP1B, and FAT1. The most frequent mutation sites were ALOX12B (c.1565C &gt;  T ), SLX4 (c.2786C &gt;  T ), LRIG1 (c.746A &gt;  G ), and SPEN (c.6915_6917del) (6.5%). Pathway analysis revealed dysregulation of cell cycle regulation, epigenetic regulation, PI3K/AKT signaling, and NOTCH signaling. A 17-mutated gene-related risk model was constructed using random survival forest analysis and showed significant prognostic value in both our cohort and the validation cohort. Based on the Estimation of Stromal and Immune cells in Malignant Tumor tissues using Expression (ESTIMATE) algorithm, the Tumor Immune Dysfunction and Exclusion (TIDE) algorithm, and the MCPcounter algorithm, we found that the risk score calculated by the risk model was significantly correlated with stimulatory immune checkpoints (TNFSF4, ITGB2, CXCL10, CXCL9, and BTN3A1; p  &lt; 0.05). Additionally, it was significantly associated with markers that are important in predicting response to immunotherapy (CD274, IFNG, and TAMM2; p  &lt; 0.05). Furthermore, the results of immunofluorescence double staining showed that patients with high risk scores had a significantly higher level of M2 macrophage than those with low risk scores ( p  &lt; 0.05). 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subjects 1-Phosphatidylinositol 3-kinase
Adult
Aged
AKT protein
Algorithms
Asian People - genetics
Biomarkers, Tumor - genetics
Cancer Research
Cell cycle
China
CXCL10 protein
East Asian People
Epigenetics
Esophageal cancer
Esophageal carcinoma
Esophageal Neoplasms - genetics
Esophageal Neoplasms - immunology
Esophageal Neoplasms - mortality
Esophageal Squamous Cell Carcinoma - genetics
Esophageal Squamous Cell Carcinoma - immunology
Esophageal Squamous Cell Carcinoma - mortality
Esophageal Squamous Cell Carcinoma - pathology
Female
Genomics
Genomics - methods
Humans
Immune checkpoint
Immunofluorescence
Immunology
Immunotherapy
Macrophages
Male
Medicine
Medicine & Public Health
Microenvironments
Middle Aged
Mutation
Oncology
p53 Protein
Prognosis
Squamous cell carcinoma
Tumor Microenvironment - genetics
Tumor Microenvironment - immunology
Tumors
title Prognostic value of genomic mutation signature associated with immune microenvironment in southern Chinese patients with esophageal squamous cell carcinoma
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