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Cancer Cell International
Published in: Cancer Cell International 1/2020

01-12-2020 | Melanoma | Primary research

OSskcm: an online survival analysis webserver for skin cutaneous melanoma based on 1085 transcriptomic profiles

Authors: Lu Zhang, Qiang Wang, Lijie Wang, Longxiang Xie, Yang An, Guosen Zhang, Wan Zhu, Yongqiang Li, Zhihui Liu, Xiaochen Zhang, Panpan Tang, Xiaozheng Huo, Xiangqian Guo

Published in: Cancer Cell International | Issue 1/2020

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Abstract

Background

Cutaneous melanoma is one of the most aggressive and lethal skin cancers. It is greatly important to identify prognostic biomarkers to guide the clinical management. However, it is technically challenging for untrained researchers to process high dimensional profiling data and identify potential prognostic genes in profiling datasets.

Methods

In this study, we developed a webserver to analyze the prognostic values of genes in cutaneous melanoma using data from TCGA and GEO databases. The webserver is named Online consensus Survival webserver for Skin Cutaneous Melanoma (OSskcm) which includes 1085 clinical melanoma samples. The OSskcm is hosted in a windows tomcat server. Server-side scripts were developed in Java script. The database system is managed by a SQL Server, which integrates gene expression data and clinical data. The Kaplan–Meier (KM) survival curves, Hazard ratio (HR) and 95% confidence interval (95%CI) were calculated in a univariate Cox regression analysis.

Results

In OSskcm, by inputting official gene symbol and selecting proper options, users could obtain KM survival plot with log-rank P value and HR on the output web page. In addition, clinical characters including race, stage, gender, age and type of therapy could also be included in the prognosis analysis as confounding factors to constrain the analysis in a subgroup of melanoma patients.

Conclusion

The OSskcm is highly valuable for biologists and clinicians to perform the assessment and validation of new or interested prognostic biomarkers for melanoma. OSskcm can be accessed online at: http://​bioinfo.​henu.​edu.​cn/​Melanoma/​MelanomaList.​jsp.
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Metadata
Title
OSskcm: an online survival analysis webserver for skin cutaneous melanoma based on 1085 transcriptomic profiles
Authors
Lu Zhang
Qiang Wang
Lijie Wang
Longxiang Xie
Yang An
Guosen Zhang
Wan Zhu
Yongqiang Li
Zhihui Liu
Xiaochen Zhang
Panpan Tang
Xiaozheng Huo
Xiangqian Guo
Publication date
01-12-2020
Publisher
BioMed Central
Published in
Cancer Cell International / Issue 1/2020
Electronic ISSN: 1475-2867
DOI
https://doi.org/10.1186/s12935-020-01262-3

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