TCGASpliceSeq a compendium of alternative mRNA splicing in cancer.
TCGASpliceSeq a compendium of alternative mRNA splicing in cancer.
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DOI：
10.1093/nar/gkv1288
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发表时间：
2016-01-04
影响因子：
14.9
通讯作者：
Weinstein J
中科院分区：
文献类型：
--
作者：
Ryan M;Wong WC;Brown R;Akbani R;Su X;Broom B;Melott J;Weinstein J
TCGA的RNASeq数据代表了有史以来最大的癌症转录组集合之一。RNASeq技术与我们的SpliceSeq软件包等计算工具相结合，提供了替代mRNA剪接的全面详细视图。癌症中的异常剪接模式涉及诸如癌发生、去分化和转移的过程。TCGA SpliceSeq（http：//bioinformatics.mdanderson.org/TCGASpliceSeq）是一个基于网络的资源，为探索TCGA肿瘤的可变剪接模式提供了快速、用户友好、高度可视化的界面。已将来自33种不同肿瘤类型的样品（包括可用的相邻正常样品）上的剪接事件的剪接入百分比（PSI）值加载到TCGA SpliceSeq中。研究人员可以询问感兴趣的基因，搜索在选定的肿瘤类型之间或之间显示出最强变异的基因，或者探索肿瘤和相邻正常样品之间的剪接模式变化。该界面直观地显示了拼接模式、读段计数和各种统计摘要（包括拼接百分比）的图形表示。还可以下载剪接数据以纳入综合分析。TCGA SpliceSeq可供学术、政府或商业使用。
TCGA's RNASeq data represent one of the largest collections of cancer transcriptomes ever assembled. RNASeq technology, combined with computational tools like our SpliceSeq package, provides a comprehensive, detailed view of alternative mRNA splicing. Aberrant splicing patterns in cancers have been implicated in such processes as carcinogenesis, de-differentiation and metastasis. TCGA SpliceSeq (http://bioinformatics.mdanderson.org/TCGASpliceSeq) is a web-based resource that provides a quick, user-friendly, highly visual interface for exploring the alternative splicing patterns of TCGA tumors. Percent Spliced In (PSI) values for splice events on samples from 33 different tumor types, including available adjacent normal samples, have been loaded into TCGA SpliceSeq. Investigators can interrogate genes of interest, search for the genes that show the strongest variation between or among selected tumor types, or explore splicing pattern changes between tumor and adjacent normal samples. The interface presents intuitive graphical representations of splicing patterns, read counts and various statistical summaries, including percent spliced in. Splicing data can also be downloaded for inclusion in integrative analyses. TCGA SpliceSeq is freely available for academic, government or commercial use.