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Database Commons - RMBase

RMBase

Citations: 2

z-index 0.59

Short name RMBase
Full name RNA Modification Base
Description RMBase (RNA Modification Base) is designed for decoding the landscape of RNA modifications identified from high-throughput sequencing datasets.
URL http://mirlab.sysu.edu.cn/rmbase/
Year founded 2015
Last update & version 2015-10-22    v1.1.0
Availability Free to all users
University/Institution hosted Sun Yat-sen University
Address Guangzhou 510275, P. R. China
City Guangzhou
Province/State Guangdong
Country/Region China
Contact name Jian-Hua Yang
Contact email yangjh7@mail.sysu.edu.cn
Data type(s)
Major organism(s)
Keyword(s)
  • RNA modification
Publication(s)
  • RMBase: a resource for decoding the landscape of RNA modifications from high-throughput sequencing data. [PMID: 26464443]

    Wen-Ju Sun, Jun-Hao Li, Shun Liu, Jie Wu, Hui Zhou, Liang-Hu Qu, Jian-Hua Yang
    Nucleic acids research 2016:44(D1)
    2 Citations (Google Scholar as of 2016-02-02)

    Abstract: Although more than 100 different types of RNA modifications have been characterized across all living organisms, surprisingly little is known about the modified positions and their functions. Recently, various high-throughput modification sequencing methods have been developed to identify diverse post-transcriptional modifications of RNA molecules. In this study, we developed a novel resource, RMBase (RNA Modification Base, http://mirlab.sysu.edu.cn/rmbase/), to decode the genome-wide landscape of RNA modifications identified from high-throughput modification data generated by 18 independent studies. The current release of RMBase includes ∼9500 pseudouridine (Ψ) modifications generated from Pseudo-seq and CeU-seq sequencing data, ∼1000 5-methylcytosines (m(5)C) predicted from Aza-IP data, ∼124 200 N6-Methyladenosine (m(6)A) modifications discovered from m(6)A-seq and ∼1210 2'-O-methylations (2'-O-Me) identified from RiboMeth-seq data and public resources. Moreover, RMBase provides a comprehensive listing of other experimentally supported types of RNA modifications by integrating various resources. It provides web interfaces to show thousands of relationships between RNA modification sites and microRNA target sites. It can also be used to illustrate the disease-related SNPs residing in the modification sites/regions. RMBase provides a genome browser and a web-based modTool to query, annotate and visualize various RNA modifications. This database will help expand our understanding of potential functions of RNA modifications. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Tags

Modification RNA
Homo sapiens Mus musculus
RNA modification

Record metadata

  • Created on: 2016-01-16
  • Curated by:
    • Lin Xia [2016-04-01]
    • Lin Liu [2016-02-02]
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