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Journal of Zhejiang University SCIENCE B
ISSN 1673-1581(Print), 1862-1783(Online), Monthly
2022 Vol.23 No.3 P.249-257
OShnscc: a novel user-friendly online survival analysis tool for head and neck squamous cell carcinoma based on RNA expression profiles and long-term survival information
Abstract: Head and neck squamous cell carcinoma (HNSCC), as the most common type (>90%) of head and neck cancer, includes various epithelial malignancies that arise in the nasal cavity, oral cavity, pharynx, and larynx. In 2020, approximately 878 000 new cases and 444 000 deaths linked to HNSCC occurred worldwide (Sung et al., 2021). Due to the associated frequent recurrence and metastasis, HNSCC patients have poor prognosis with a five-year survival rate of 40%–50% (Jou and Hess, 2017). Therefore, novel prognostic biomarkers need to be developed to identify high-risk HNSCC patients and improve their disease outcomes.
Key words: Head and neck squamous cell carcinoma; Prognostic biomarker; Online survival tool; Kaplan-Meier curve; OShnscc
创新点：本研究开发的OShnscc是目前为止包含头颈鳞癌预后数据集最多、样本量最大的在线生存分析工具。用户不仅可以在多个独立数据集中分析和比较基因的预后价值，还可以利用多种临床因素如肿瘤TNM分期、肿瘤分级、年龄、性别等因素作为筛选条件进行亚组预后分析。
方法：OShnscc的开发包括三部分：（1）以样本为人头颈鳞癌临床样本的基因芯片或二代测序数据且数据集样本数大于20个为筛选标准，从公共癌症数据库中收集和筛选有效的头颈鳞癌数据集；（2）使用SQL Server 2008对样本头颈鳞癌表达谱数据与样本生存时间进行回归分析，构建头颈鳞癌预后数据库；（3）采用Java语言开发在线分析系统，使用R语言进行生存分析，应用R sever服务进行Java语言与R语言的连接。
结论：OShnscc是一个公开免费的在线生存分析工具（网址：http://bioinfo.henu.edu.cn/HNSC/HNSCList.jsp），为缺少生物信息学背景的医学及相关科研人员提供一个快速分析基因mRNA表达量与头颈鳞癌患者预后关系的平台，有助于推动头颈鳞癌的预后标志物开发。
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DOI:
10.1631/jzus.B2100512
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On-line Access:
2022-03-09
Received:
2021-06-18
Revision Accepted:
2021-09-08
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