RBPTD: a database of cancer-related RNA-binding proteins in humans
RBPTD: a database of cancer-related RNA-binding proteins in humans
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RBPTD：人类癌症相关 RNA 结合蛋白数据库
DOI：
10.1093/database/baz156
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发表时间：
2020-02-11
影响因子：
5.8
通讯作者：
Liu, Tian-Cai
中科院分区：
文献类型：
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作者：
Li, Kun;Guo, Zhi-Wei;Liu, Tian-Cai
RNA结合蛋白（RNA-binding proteins，RBP）在调节参与人类生理和病理过程的基因表达中起着重要作用，特别是在癌症中。已经发现许多RBP在癌症中失调;然而，没有工具来整合来自不同维度的高通量数据，以系统地识别癌症相关的RBP并探索其异常的原因及其潜在功能。因此，我们开发了一个名为RBPTD的数据库，以识别人类癌症相关的RBP，并通过整合28种癌症中不同类型的数据，包括基因表达谱，预后数据和DNA拷贝数变异（CNV），系统地探索其功能和异常。共发现454个显著差异表达的RBPs，1970个具有显著预后价值的RBPs，以及53个与CNV异常相关的失调RBPs。通过分析交联免疫沉淀获得的高通量RNA测序数据，探索了26种癌症相关RBP的功能，并通过计算其与其他基因的相关系数预测了其余RBP的功能。最后，我们开发了RBPTD供用户探索癌症相关RBPs的功能和异常，以提高我们对它们在肿瘤发生中作用的理解。数据库URL：http：//www.rbptd.com
RNA-binding proteins (RBPs) play important roles in regulating the expression of genes involved in human physiological and pathological processes, especially in cancers. Many RBPs have been found to be dysregulated in cancers; however, there was no tool to incorporate high-throughput data from different dimensions to systematically identify cancer-related RBPs and to explore their causes of abnormality and their potential functions. Therefore, we developed a database named RBPTD to identify cancer-related RBPs in humans and systematically explore their functions and abnormalities by integrating different types of data, including gene expression profiles, prognosis data and DNA copy number variation (CNV), among 28 cancers. We found a total of 454 significantly differentially expressed RBPs, 1970 RBPs with significant prognostic value, and 53 dysregulated RBPs correlated with CNV abnormality. Functions of 26 cancer-related RBPs were explored by analysing high-throughput RNA sequencing data obtained by crosslinking immunoprecipitation, and the remaining RBP functions were predicted by calculating their correlation coefficient with other genes. Finally, we developed the RBPTD for users to explore functions and abnormalities of cancer-related RBPs to improve our understanding of their roles in tumorigenesis.Database URL: http: //www.rbptd.com