Wang Ze-Lin, Zhang Xiao-Qin, Zhou Hui, Yang Jian-Hua, Qu Liang-Hu
Key Laboratory of Gene Engineering of the Ministry of Education, GuangZhou 510275, China.
State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510275, China.
Noncoding RNA. 2017 Feb 7;3(1):7. doi: 10.3390/ncrna3010007.
Non-coding RNAs (ncRNAs) have been shown to contribute to tumorigenesis and progression. However, the functions of the majority of ncRNAs remain unclear. Through integrating published large-scale somatic copy number alterations (SCNAs) data from various human cancer types, we have developed oncoNcRNA, a user-friendly web portal to explore ncRNAs with oncogenic potential in human cancers. The portal characterizes the SCNAs of over 58,000 long non-coding RNAs (lncRNAs), 34,000 piwi-interacting RNAs (piRNAs), 2700 microRNAs (miRNAs), 600 transfer RNAs (tRNAs) and 400 small nucleolar RNAs (snoRNAs) in 64 human cancer types. It enables researchers to rapidly and intuitively analyze the oncogenic potential of ncRNAs of interest. Indeed, we have discovered a large number of ncRNAs which are frequently amplified or deleted within and across tumor types. Moreover, we built a web-based tool, Correlations, to explore the relationships between gene expression and copy number from ~10,000 tumor samples in 36 cancer types identified by The Cancer Genome Atlas (TCGA). oncoNcRNA is a valuable tool for investigating the function and clinical relevance of ncRNAs in human cancers. oncoNcRNA is freely available at http://rna.sysu.edu.cn/onconcrna/.
非编码RNA（ncRNAs）已被证明与肿瘤发生和进展有关。然而，大多数ncRNAs的功能仍不清楚。通过整合已发表的来自各种人类癌症类型的大规模体细胞拷贝数改变（SCNAs）数据，我们开发了oncoNcRNA，这是一个用户友好的网络门户，用于探索人类癌症中具有致癌潜力的ncRNAs。该门户对64种人类癌症类型中超过58,000种长链非编码RNA（lncRNAs）、34,000种与Piwi相互作用的RNA（piRNAs）、2700种微小RNA（miRNAs）、600种转运RNA（tRNAs）和400种小核仁RNA（snoRNAs）的SCNAs进行了表征。它使研究人员能够快速直观地分析感兴趣的ncRNAs的致癌潜力。事实上，我们发现了大量在肿瘤类型内和肿瘤类型间经常扩增或缺失的ncRNAs。此外，我们构建了一个基于网络的工具Correlations，以探索由癌症基因组图谱（TCGA）确定的36种癌症类型中约10,000个肿瘤样本的基因表达与拷贝数之间的关系。oncoNcRNA是研究ncRNAs在人类癌症中的功能和临床相关性的有价值工具。可通过http://rna.sysu.edu.cn/onconcrna/免费获取oncoNcRNA。
