Mengfei Sun, Yandi Ma, Fuqiang Zhou, Quansheng Xiang, Shangfeng He, Jie Yu, Wenjie Wang, Jingwen Qi, Yang Wang, Qi Sun, Hui Li, Yunzhao Chen, Xiaobin Cui
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This study aims to investigate the role of long non-coding RNAs (lncRNAs) and messenger RNAs (mRNAs) in predicting the prognosis and survival of patients with ESCC.</p><p><strong>Methods: </strong>Prognosis-related genes were studied by analyzing RNA sequencing data of ESCC in The Cancer Genome Atlas (TCGA) database, and they were divided into a training cohort (n=83) and a test cohort (n=76). A risk score model was constructed and prognosis-related markers were verified.</p><p><strong>Results: </strong>Nine prognosis-related genes (<i>RP11-51F16.1</i>, <i>FABP3</i>, <i>RP11-4K3-A.3</i>, <i>GNG12-AS1</i>, <i>RP11-2N1.2</i>, <i>PRICKLE2-AS1</i>, <i>KB-1254G8.1</i>, <i>AC132825.1</i>, and <i>RP11-294N21.3</i>) were screened out. Further construction of the risk score model revealed that the risk score was an independent prognostic factor. In addition, this study integrated prognostic markers and combined clinical features to develop a nomogram for predicting the overall survival (OS) rate for 1 to 3 years. Through quantitative reverse transcription polymerase chain reaction (qRT-PCR) and immunohistochemistry (IHC) staining experiments, this study found that FABP3 was upregulated in ESCC, and patients with high expression of FABP3 had a shorter OS (P=0.04), and the upregulation of FABP3 was significantly correlated with the degree of differentiation of ESCC (P=0.04). Gene Set Enrichment Analysis (GSEA) indicated that the functions related to metabolism were mainly concentrated in the high-risk group. From a metabolic perspective, they played a role in regulating the tumorigenesis process. The analysis of changes in chemotherapy drug resistance found that the half maximal inhibitory concentration (IC<sub>50</sub>) of 25 drugs was higher in the high-risk group, which confirmed that this feature played an important role in the prognosis and treatment of ESCC.</p><p><strong>Conclusions: </strong>This study identified a new set of characteristics of nine prognostic genes related to ESCC, which may provide ideas for prognosis prediction and new therapeutic methods for ESCC patients.</p>","PeriodicalId":23216,"journal":{"name":"Translational cancer research","volume":"14 7","pages":"4305-4320"},"PeriodicalIF":1.7000,"publicationDate":"2025-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12335710/pdf/","citationCount":"0","resultStr":"{\"title\":\"A nine-gene signature with potential targets for predicting the prognosis of patients with esophageal cancer.\",\"authors\":\"Mengfei Sun, Yandi Ma, Fuqiang Zhou, Quansheng Xiang, Shangfeng He, Jie Yu, Wenjie Wang, Jingwen Qi, Yang Wang, Qi Sun, Hui Li, Yunzhao Chen, Xiaobin Cui\",\"doi\":\"10.21037/tcr-2025-146\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Background: </strong>The incidence of esophageal squamous cell carcinoma (ESCC) is high and the prognosis is poor. 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引用次数: 0
摘要
背景：食管鳞状细胞癌（ESCC）发病率高，预后差。它已成为威胁该地区经济发展和社会稳定的重要因素之一。缺乏有效的早期诊断生物学指标是导致ESCC临床患者就诊时间晚、死亡率高的主要原因。本研究旨在探讨长链非编码rna （lncRNAs）和信使rna （mrna）在预测ESCC患者预后和生存中的作用。方法：通过分析The Cancer Genome Atlas （TCGA）数据库中ESCC的RNA测序数据，研究预后相关基因，并将其分为训练组（n=83）和测试组（n=76）。构建风险评分模型，验证预后相关指标。结果：9个预后相关基因(RP11-51F16.1, FABP3, RP11-4K3-A。筛选出GNG12-AS1、RP11-2N1.2、PRICKLE2-AS1、KB-1254G8.1、AC132825.1、RP11-294N21.3)。进一步构建风险评分模型，发现风险评分是一个独立的预后因素。此外，本研究结合预后标志物和临床特征，制定了预测1至3年总生存率（OS）的nomogram。本研究通过定量逆转录聚合酶链反应（qRT-PCR）和免疫组化（IHC）染色实验发现，FABP3在ESCC中表达上调，且FABP3高表达的患者生存期较短（P=0.04），且FABP3表达上调与ESCC分化程度显著相关（P=0.04）。基因集富集分析（Gene Set Enrichment Analysis， GSEA）显示，与代谢相关的功能主要集中在高危人群。从代谢的角度来看，它们在调节肿瘤发生过程中发挥了作用。对化疗耐药变化的分析发现，25种药物的半数最大抑制浓度（IC50）在高危组较高，证实了这一特征对ESCC的预后和治疗具有重要作用。结论：本研究确定了与ESCC相关的9个预后基因的一组新特征，可能为ESCC患者的预后预测和新的治疗方法提供思路。
A nine-gene signature with potential targets for predicting the prognosis of patients with esophageal cancer.
Background: The incidence of esophageal squamous cell carcinoma (ESCC) is high and the prognosis is poor. It has become one of the important factors threatening the economic development and social stability of the region. The lack of effective early diagnostic biological indicators is the main reason for the late visit time and high mortality rate of clinical patients with ESCC. This study aims to investigate the role of long non-coding RNAs (lncRNAs) and messenger RNAs (mRNAs) in predicting the prognosis and survival of patients with ESCC.
Methods: Prognosis-related genes were studied by analyzing RNA sequencing data of ESCC in The Cancer Genome Atlas (TCGA) database, and they were divided into a training cohort (n=83) and a test cohort (n=76). A risk score model was constructed and prognosis-related markers were verified.
Results: Nine prognosis-related genes (RP11-51F16.1, FABP3, RP11-4K3-A.3, GNG12-AS1, RP11-2N1.2, PRICKLE2-AS1, KB-1254G8.1, AC132825.1, and RP11-294N21.3) were screened out. Further construction of the risk score model revealed that the risk score was an independent prognostic factor. In addition, this study integrated prognostic markers and combined clinical features to develop a nomogram for predicting the overall survival (OS) rate for 1 to 3 years. Through quantitative reverse transcription polymerase chain reaction (qRT-PCR) and immunohistochemistry (IHC) staining experiments, this study found that FABP3 was upregulated in ESCC, and patients with high expression of FABP3 had a shorter OS (P=0.04), and the upregulation of FABP3 was significantly correlated with the degree of differentiation of ESCC (P=0.04). Gene Set Enrichment Analysis (GSEA) indicated that the functions related to metabolism were mainly concentrated in the high-risk group. From a metabolic perspective, they played a role in regulating the tumorigenesis process. The analysis of changes in chemotherapy drug resistance found that the half maximal inhibitory concentration (IC50) of 25 drugs was higher in the high-risk group, which confirmed that this feature played an important role in the prognosis and treatment of ESCC.
Conclusions: This study identified a new set of characteristics of nine prognostic genes related to ESCC, which may provide ideas for prognosis prediction and new therapeutic methods for ESCC patients.
期刊介绍：
Translational Cancer Research (Transl Cancer Res TCR; Print ISSN: 2218-676X; Online ISSN 2219-6803; http://tcr.amegroups.com/) is an Open Access, peer-reviewed journal, indexed in Science Citation Index Expanded (SCIE). TCR publishes laboratory studies of novel therapeutic interventions as well as clinical trials which evaluate new treatment paradigms for cancer; results of novel research investigations which bridge the laboratory and clinical settings including risk assessment, cellular and molecular characterization, prevention, detection, diagnosis and treatment of human cancers with the overall goal of improving the clinical care of cancer patients. The focus of TCR is original, peer-reviewed, science-based research that successfully advances clinical medicine toward the goal of improving patients'' quality of life. The editors and an international advisory group of scientists and clinician-scientists as well as other experts will hold TCR articles to the high-quality standards. We accept Original Articles as well as Review Articles, Editorials and Brief Articles.
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