Full Text:   <1053>

Summary:  <181>

Suppl. Mater.: 

CLC number: 

On-line Access: 2022-03-09

Received: 2021-06-18

Revision Accepted: 2021-09-08

Crosschecked: 0000-00-00

Cited: 0

Clicked: 1987

Citations:  Bibtex RefMan EndNote GB/T7714

 ORCID:

Jiancheng GUO

https://orcid.org/0000-0001-8553-4105

Xiangqian GUO

https://orcid.org/0000-0001-6645-5786

-   Go to

Article info.
Open peer comments

Journal of Zhejiang University SCIENCE B 2022 Vol.23 No.3 P.249-257

http://doi.org/10.1631/jzus.B2100512


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


Author(s):  Guosen ZHANG, Qiang WANG, Xinlei QI, Huimin YANG, Xiaodong SU, Manman YANG, Chao JIANG, Yang AN, Hong ZHENG, Lu ZHANG, Wan ZHU, Jiancheng GUO, Xiangqian GUO

Affiliation(s):  Department of Predictive Medicine, Institute of Biomedical Informatics, Cell Signal Transduction Laboratory, Bioinformatics Center, Henan Provincial Engineering Center for Tumor Molecular Medicine, School of Basic Medical Sciences, Henan University, Kaifeng 475004, China; more

Corresponding email(s):   xqguo@henu.edu.cn, gjc@zzu.edu.cn

Key Words:  Head and neck squamous cell carcinoma, Prognostic biomarker, Online survival tool, Kaplan-Meier curve, OShnscc


Guosen ZHANG, Qiang WANG, Xinlei QI, Huimin YANG, Xiaodong SU, Manman YANG, Chao JIANG, Yang AN, Hong ZHENG, Lu ZHANG, Wan ZHU, Jiancheng GUO, Xiangqian GUO. 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[J]. Journal of Zhejiang University Science B, 2022, 23(3): 249-257.

@article{title="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",
author="Guosen ZHANG, Qiang WANG, Xinlei QI, Huimin YANG, Xiaodong SU, Manman YANG, Chao JIANG, Yang AN, Hong ZHENG, Lu ZHANG, Wan ZHU, Jiancheng GUO, Xiangqian GUO",
journal="Journal of Zhejiang University Science B",
volume="23",
number="3",
pages="249-257",
year="2022",
publisher="Zhejiang University Press & Springer",
doi="10.1631/jzus.B2100512"
}

%0 Journal Article
%T 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
%A Guosen ZHANG
%A Qiang WANG
%A Xinlei QI
%A Huimin YANG
%A Xiaodong SU
%A Manman YANG
%A Chao JIANG
%A Yang AN
%A Hong ZHENG
%A Lu ZHANG
%A Wan ZHU
%A Jiancheng GUO
%A Xiangqian GUO
%J Journal of Zhejiang University SCIENCE B
%V 23
%N 3
%P 249-257
%@ 1673-1581
%D 2022
%I Zhejiang University Press & Springer
%DOI 10.1631/jzus.B2100512

TY - JOUR
T1 - 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
A1 - Guosen ZHANG
A1 - Qiang WANG
A1 - Xinlei QI
A1 - Huimin YANG
A1 - Xiaodong SU
A1 - Manman YANG
A1 - Chao JIANG
A1 - Yang AN
A1 - Hong ZHENG
A1 - Lu ZHANG
A1 - Wan ZHU
A1 - Jiancheng GUO
A1 - Xiangqian GUO
J0 - Journal of Zhejiang University Science B
VL - 23
IS - 3
SP - 249
EP - 257
%@ 1673-1581
Y1 - 2022
PB - Zhejiang University Press & Springer
ER -
DOI - 10.1631/jzus.B2100512


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.

OShnscc:一个基于表达谱数据及其长期生存信息开发的头颈鳞癌在线生存分析工具

目的:头颈鳞癌是常见的恶性肿瘤之一,预后较差。开发新的预后分子标志物对于改善头颈鳞癌患者的预后具有重要意义。因此,本研究通过整合公共癌症数据库中的头颈鳞癌表达谱数据及临床生存信息,开发了头颈鳞癌在线生存分析工具OShnscc(Online consensus Survival tool for Head and Neck Squamous Cell Carcinoma),用于评价基因mRNA表达量与头颈鳞癌患者生存时间的相关性。
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。

关键词:头颈鳞癌;在线生存分析工具;预后标志物

Darkslateblue:Affiliate; Royal Blue:Author; Turquoise:Article

Reference

[1]FauziFH, HamzanNI, RahmanNA, et al., 2020. Detection of human papillomavirus in oropharyngeal squamous cell carcinoma. J Zhejiang Univ-Sci B (Biomed & Biotechnol), 21(12):961-976.

[2]HanavadiS, MartinTA, WatkinsG, et al., 2006. Expression of interleukin 11 and its receptor and their prognostic value in human breast cancer. Ann Surg Oncol, 13(6):802-808.

[3]JouA, HessJ, 2017. Epidemiology and molecular biology of head and neck cancer. Oncol Res Treat, 40(6):328-332.

[4]KimKY, McShaneLM, ConleyBA, 2014. Designing biomarker studies for head and neck cancer. Head Neck, 36(7):1069-1075.

[5]LiuJF, LichtenbergT, HoadleyKA, et al., 2018. An integrated TCGA Pan-Cancer Clinical Data Resource to drive high-quality survival outcome analytics. Cell, 173(2):400-416.e11.

[6]NaghaviAO, EchevarriaMI, StromTJ, et al., 2016. Treatment delays, race, and outcomes in head and neck cancer. Cancer Epidemiol, 45:18-25.

[7]NagyÁ, LánczkyA, MenyhártO, et al., 2018. Validation of miRNA prognostic power in hepatocellular carcinoma using expression data of independent datasets. Sci Rep, 8:9227.

[8]PaiSI, WestraWH, 2009. Molecular pathology of head and neck cancer: implications for diagnosis, prognosis, and treatment. Annu Rev Pathol, 4:49-70.

[9]PanD, XuL, LiuHO, et al., 2015. High expression of interleukin-11 is an independent indicator of poor prognosis in clear-cell renal cell carcinoma. Cancer Sci, 106(5):592-597.

[10]PolanskaH, RaudenskaM, GumulecJ, et al., 2014. Clinical significance of head and neck squamous cell cancer biomarkers. Oral Oncol, 50(3):168-177.

[11]SungH, FerlayJ, SiegelRL, et al., 2021. Global Cancer Statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J Clin, 71(3):209-249.

[12]TangZF, LiCW, KangBX, et al., 2017. GEPIA: a web server for cancer and normal gene expression profiling and interactive analyses. Nucleic Acids Res, 45(W1):W98-W102.

[13]WichmannG, RosolowskiM, KrohnK, et al., 2015. The role of HPV RNA transcription, immune response-related gene expression and disruptive TP53 mutations in diagnostic and prognostic profiling of head and neck cancer. Int J Cancer, 137(12):2846-2857.

[14]XuDH, ZhuZW, WakefieldMR, et al., 2016. The role of IL-11 in immunity and cancer. Cancer Lett, 373(2):156-163.

[15]XuN, DongRN, LinTT, et al., 2021. Development and validation of novel biomarkers related to M2 macrophages infiltration by weighted gene co-expression network analysis in prostate cancer. Front Oncol, 11:634075.

[16]ZhangGS, WangQ, YangMS, et al., 2019. OSblca: a web server for investigating prognostic biomarkers of bladder cancer patients. Front Oncol, 9:466.

[17]ZhaoM, LiuY, LiuR, et al., 2018. Upregulation of IL-11, an IL-6 family cytokine, promotes tumor progression and correlates with poor prognosis in non-small cell lung cancer. Cell Physiol Biochem, 45(6):2213-2224.

Open peer comments: Debate/Discuss/Question/Opinion

<1>

Please provide your name, email address and a comment





Journal of Zhejiang University-SCIENCE, 38 Zheda Road, Hangzhou 310027, China
Tel: +86-571-87952783; E-mail: cjzhang@zju.edu.cn
Copyright © 2000 - 2022 Journal of Zhejiang University-SCIENCE