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Non-Coding RNA 2017, 3(1), 7; doi:10.3390/ncrna3010007

oncoNcRNA: A Web Portal for Exploring the Non-Coding RNAs with Oncogenic Potentials in Human Cancers

1
Key Laboratory of Gene Engineering of the Ministry of Education, GuangZhou 510275, China
2
State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510275, China
3
School of medicine, South China University of Technology, Guangzhou 510640, China
*
Authors to whom correspondence should be addressed.
Academic Editor: George A. Calin
Received: 30 November 2016 / Revised: 12 January 2017 / Accepted: 20 January 2017 / Published: 7 February 2017
(This article belongs to the Special Issue Bioinformatics Softwares and Databases for Non-Coding RNA Research)
View Full-Text   |   Download PDF [1990 KB, uploaded 7 February 2017]   |  

Abstract

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/. View Full-Text
Keywords: ncRNAs; cancer; somatic copy number alteration; biomarker ncRNAs; cancer; somatic copy number alteration; biomarker
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Wang, Z.-L.; Zhang, X.-Q.; Zhou, H.; Yang, J.-H.; Qu, L.-H. oncoNcRNA: A Web Portal for Exploring the Non-Coding RNAs with Oncogenic Potentials in Human Cancers. Non-Coding RNA 2017, 3, 7.

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