Web-TCGA: an online platform for integrated analysis of molecular cancer data sets.
Web-TCGA: an online platform for integrated analysis of molecular cancer data sets.
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DOI：
10.1186/s12859-016-0917-9
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发表时间：
2016-02-06
影响因子：
3
通讯作者：
Perner S
中科院分区：
文献类型：
--
作者：
Deng M;Brägelmann J;Schultze JL;Perner S
癌症基因组图谱（TCGA）是一个分子数据集池，可供世界各地的癌症研究人员公开访问和免费使用。然而，广泛使用是有限的，因为需要先进的统计知识和统计软件。为了提高可访问性，我们创建了Web-TCGA，这是一个基于Web的免费在线工具，也可以在私人实例中运行，用于TCGA提供的分子癌症数据集的综合分析。与现有工具相比，Web-TCGA利用不同的方法对TCGA数据进行分析和可视化，允许用户同时生成不同癌症实体的全球分子谱。除了全球分子概况外，Web-TCGA还通过提供交互式表格和视图提供高度详细的基因和肿瘤实体中心分析。作为对其他已经可用的工具的补充，例如cBioPortal（Sci Signal 6：pl 1，2013，Cancer Discov 2：401-4，2012），Web-TCGA提供分析服务，其不需要任何安装或配置，用于TCGA处可用的分子数据集。由用户生成用于突变、甲基化、表达和拷贝数变异（CNV）分析的单个处理请求（查询）。用户可以集中分析单个基因和癌症实体的结果，或执行全局分析（同时进行多个癌症实体和基因）。本文的在线版本（doi：10.1186/s12859-016-0917-9）包含补充材料，可供授权用户使用。
The Cancer Genome Atlas (TCGA) is a pool of molecular data sets publicly accessible and freely available to cancer researchers anywhere around the world. However, wide spread use is limited since an advanced knowledge of statistics and statistical software is required. In order to improve accessibility we created Web-TCGA, a web based, freely accessible online tool, which can also be run in a private instance, for integrated analysis of molecular cancer data sets provided by TCGA. In contrast to already available tools, Web-TCGA utilizes different methods for analysis and visualization of TCGA data, allowing users to generate global molecular profiles across different cancer entities simultaneously. In addition to global molecular profiles, Web-TCGA offers highly detailed gene and tumor entity centric analysis by providing interactive tables and views. As a supplement to other already available tools, such as cBioPortal (Sci Signal 6:pl1, 2013, Cancer Discov 2:401–4, 2012), Web-TCGA is offering an analysis service, which does not require any installation or configuration, for molecular data sets available at the TCGA. Individual processing requests (queries) are generated by the user for mutation, methylation, expression and copy number variation (CNV) analyses. The user can focus analyses on results from single genes and cancer entities or perform a global analysis (multiple cancer entities and genes simultaneously). The online version of this article (doi:10.1186/s12859-016-0917-9) contains supplementary material, which is available to authorized users.