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主管单位 工业和信息化部 主办单位 哈尔滨工业大学 主编 任南琪 国际刊号ISSN 1672-5565 国内刊号CN 23-1513/Q

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引用本文:康敏,余敏敏.基于基因组不稳定性相关lncRNA的宫颈癌患者预后模型[J].生物信息学,2022,20(4):264-273.
KANG Min,YU Minmin.Prognostic model of cervical cancer patients based on genomic instability-related lncRNA[J].Chinese Journal of Bioinformatics,2022,20(4):264-273.
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基于基因组不稳定性相关lncRNA的宫颈癌患者预后模型
康敏,余敏敏
(南京市第二医院/南京中医药大学附属南京医院,南京 210003)
摘要:
结合TCGA数据库中宫颈癌的lncRNA表达谱和体细胞突变谱,构建基于突变假设的计算框架,鉴定出36个与宫颈癌基因组不稳定性相关的lncRNA;对其共表达的基因功能进行分析,发现与36个lncRNA共表达的基因在2-氧代戊二酸代谢过程和2-氧羧酸代谢通路中富集。构建了基于基因组不稳定性衍生的两个lncRNA的基因特征(GILncSig),将Train组患者分为高风险组和低风险组,两组患者生存率显著不同,这一结果在Test组患者中得到进一步验证。通过独立预后分析,结果显示GILncSig可独立于其他临床性状,作为宫颈癌患者的整体生存相关独立预后因子。总之,本研究为进一步探讨lncRNA在基因组不稳定性中的作用提供了关键的方法和资源,为识别基因组不稳定性相关的肿瘤标志物提供了新的预测方法。
关键词:  宫颈癌  基因组不稳定性  长非编码RNA  突变表型
DOI:10.12113/202107010
分类号:R71;R73
文献标识码:A
基金项目:国家自然科学基金项目(No. 81472431).
Prognostic model of cervical cancer patients based on genomic instability-related lncRNA
KANG Min, YU Minmin
(Nanjing Hospital Affiliated to Nanjing University of Traditional Chinese Medicine/The Second Hospital of Nanjing, Nanjing 210003, China)
Abstract:
Combined with the expression profile of long non-coding RNA (lncRNA) and somatic mutation profile in the genome of cervical cancer in TCGA database, a computational framework based on mutation hypothesis was established. A total of 36 lncRNAs associated with genomic instability of cervical cancer were identified, and the function of their co-expressed genes was analyzed. The genes co-expressed with 36 lncRNAs were enriched in the 2-oxy-glutarate and 2-oxy-carboxylic acid metabolic pathways. Gene signatures (GILncSig) of two lncRNAs derived from genomic instability were determined, and the Train group was divided into a high-risk group and a low-risk group. The survival rates of the two groups were significantly different, which was further validated in the Test cohort. According to independent prognostic analysis, GILncSig was an independent prognostic factor associated with overall survival of cervical cancer patients. In conclusion, this study provides key methods and resources to further investigate the role of lncRNA in genomic instability, and provides a potential new pathway for identifying cancer biomarkers associated with genomic instability.
Key words:  Cervical cancer  Genome instability  Long non-coding RNAs  Mutator phenotype

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