CTLPScanner: a web server for chromothripsis-like pattern detection.
CTLPScanner: a web server for chromothripsis-like pattern detection.
复制标题
CTLPScanner：用于类染色体碎裂模式检测的 Web 服务器
DOI：
10.1093/nar/gkw434
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发表时间：
2016-07-08
影响因子：
14.9
通讯作者：
Cai H
中科院分区：
文献类型：
--
作者：
Yang J;Liu J;Ouyang L;Chen Y;Liu B;Cai H
染色体碎裂是最近在癌细胞中观察到的现象，其中一个或几个染色体碎裂成碎片，随后不准确地重新组装和克隆繁殖。这种类型的事件在相对较短的时间内产生潜在的大量突变，并被认为是癌症发展的新范式。尽管最近的进展，仍然需要做很多工作，以更好地了解这种现象的分子机制，因此，一个易于使用的工具是在自动检测和注释chromothripsis的迫切需要。在这里，我们提出了CTLPScanner，一个Web服务器检测的chromothripsis样模式（CTLP）的基因组阵列数据。在输出界面中，直观地显示了检测到的染色体粉碎区域的图形表示，以及以表格形式显示的详细结果。CTLPScanner还提供了chromothripsis区域相关基因的额外信息，以帮助识别参与肿瘤发生的潜在候选基因。为了帮助进行元数据分析，我们将来自The Cancer Genome Atlas和Gene Expression Omnibus的50，000多个预处理基因组阵列整合到CTLPScanner中。服务器允许用户从公共数据资源中探索chromothripsis签名的存在，而无需执行任何本地数据处理。CTLPScanner可在http://cgma.scu.edu.cn/CTLPScanner/上免费获得。
Chromothripsis is a recently observed phenomenon in cancer cells in which one or several chromosomes shatter into pieces with subsequent inaccurate reassembly and clonal propagation. This type of event generates a potentially vast number of mutations within a relatively short-time period, and has been considered as a new paradigm in cancer development. Despite recent advances, much work is still required to better understand the molecular mechanisms of this phenomenon, and thus an easy-to-use tool is in urgent need for automatically detecting and annotating chromothripsis. Here we present CTLPScanner, a web server for detection of chromothripsis-like pattern (CTLP) in genomic array data. The output interface presents intuitive graphical representations of detected chromosome pulverization region, as well as detailed results in table format. CTLPScanner also provides additional information for associated genes in chromothripsis region to help identify the potential candidates involved in tumorigenesis. To assist in performing meta-data analysis, we integrated over 50 000 pre-processed genomic arrays from The Cancer Genome Atlas and Gene Expression Omnibus into CTLPScanner. The server allows users to explore the presence of chromothripsis signatures from public data resources, without carrying out any local data processing. CTLPScanner is freely available at http://cgma.scu.edu.cn/CTLPScanner/.