RAID: a comprehensive resource for human RNA-associated (RNA–RNA/RNA–protein) interaction
- Xiaomeng Zhang1,3,
- Deng Wu1,3,
- Liqun Chen1,3,
- Xiang Li1,3,
- Jinxurong Yang1,
- Dandan Fan1,
- Tingting Dong1,
- Mingyue Liu1,
- Puwen Tan1,
- Jintian Xu1,
- Ying Yi1,
- Yuting Wang1,
- Hua Zou1,
- Yongfei Hu1,
- Kaili Fan1,
- Juanjuan Kang1,
- Yan Huang1,
- Zhengqiang Miao1,
- Miaoman Bi1,
- Nana Jin1,
- Kongning Li1,
- Xia Li1,4,
- Jianzhen Xu2,4 and
- Dong Wang1,4
- 1College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China
- 2College of Bioengineering, Henan University of Technology, Zhengzhou 450000, China
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↵3 These authors contributed equally to this work.
Abstract
Transcriptomic analyses have revealed an unexpected complexity in the eukaryote transcriptome, which includes not only protein-coding transcripts but also an expanding catalog of noncoding RNAs (ncRNAs). Diverse coding and noncoding RNAs (ncRNAs) perform functions through interaction with each other in various cellular processes. In this project, we have developed RAID (http://www.rna-society.org/raid), an RNA-associated (RNA–RNA/RNA–protein) interaction database. RAID intends to provide the scientific community with all-in-one resources for efficient browsing and extraction of the RNA-associated interactions in human. This version of RAID contains more than 6100 RNA-associated interactions obtained by manually reviewing more than 2100 published papers, including 4493 RNA–RNA interactions and 1619 RNA–protein interactions. Each entry contains detailed information on an RNA-associated interaction, including RAID ID, RNA/protein symbol, RNA/protein categories, validated method, expressing tissue, literature references (Pubmed IDs), and detailed functional description. Users can query, browse, analyze, and manipulate RNA-associated (RNA–RNA/RNA–protein) interaction. RAID provides a comprehensive resource of human RNA-associated (RNA–RNA/RNA–protein) interaction network. Furthermore, this resource will help in uncovering the generic organizing principles of cellular function network.
Keywords
Footnotes
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↵4 Corresponding authors
E-mail wangdong{at}ems.hrbmu.edu.cn
E-mail xujz0451{at}gmail.com
E-mail lixia{at}hrbmu.edu.cn
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Article published online ahead of print. Article and publication date are at http://www.rnajournal.org/cgi/doi/10.1261/rna.044776.114.
- Received February 10, 2014.
- Accepted March 4, 2014.
This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.