NcRNA2MetS: a manually curated database for non-coding RNAs associated with metabolic syndrome.

Dengju Yao,Chee Keong Kwoh,Xiaojuan Zhan,Yuezhongyi Sun,Xiaorong Zhan

doi:10.7717/peerj.7909

Abstract

Metabolic syndrome is a cluster of the most dangerous heart attack risk factors (diabetes and raised fasting plasma glucose, abdominal obesity, high cholesterol and high blood pressure), and has become a major global threat to human health. A number of studies have demonstrated that hundreds of non-coding RNAs, including miRNAs and lncRNAs, are involved in metabolic syndrome-related diseases such as obesity, type 2 diabetes mellitus, hypertension, etc. However, these research results are distributed in a large number of literature, which is not conducive to analysis and use. There is an urgent need to integrate these relationship data between metabolic syndrome and non-coding RNA into a specialized database. To address this need, we developed a metabolic syndrome-associated non-coding RNA database (ncRNA2MetS) to curate the associations between metabolic syndrome and non-coding RNA. Currently, ncRNA2MetS contains 1,068 associations between five metabolic syndrome traits and 627 non-coding RNAs (543 miRNAs and 84 lncRNAs) in four species. Each record in ncRNA2MetS database represents a pair of disease-miRNA (lncRNA) association consisting of non-coding RNA category, miRNA (lncRNA) name, name of metabolic syndrome trait, expressive patterns of non-coding RNA, method for validation, specie involved, a brief introduction to the association, the article referenced, etc. We also developed a user-friendly website so that users can easily access and download all data. In short, ncRNA2MetS is a complete and high-quality data resource for exploring the role of non-coding RNA in the pathogenesis of metabolic syndrome and seeking new treatment options. The website is freely available at http://www.biomed-bigdata.com:50020/index.html

Highlights

Metabolic syndrome (MetS) is a cluster of the most dangerous heart attack risk factors: diabetes and raised fasting plasma glucose, abdominal obesity, high cholesterol and high blood pressure (Alberti, Zimmet & Shaw, 2005)
In the process of extracting these associations, the detailed information about MetS-miRNA association were collected, including non-coding RNA category, miRNA name, name of metabolic syndrome trait, ICD-11 classification and DO (Disease Ontology) identifier for metabolic syndrome trait, method for validation (e.g., RNA-seq, luciferase report assays, gene knock-out), detected tissue, expressive patterns, name of the gene regulated by miRNA, species involved, referenced article (PubMed ID, title, year of publication) and a brief introduction to this association in the referenced article
After manual screening according to the relevance of the research contents, 571 articles were selected for reading in detail, and 1,068 MetS-miRNA associations were identified

Summary

Introduction

Metabolic syndrome (MetS) is a cluster of the most dangerous heart attack risk factors: diabetes and raised fasting plasma glucose, abdominal obesity, high cholesterol and high blood pressure (Alberti, Zimmet & Shaw, 2005). A growing number of studies have suggested that many non-coding RNAs (ncRNAs), including small non-coding RNAs, microRNAs (miRNAs), and long noncoding RNAs (lncRNAs), may be involved in metabolic syndrome-related diseases such as obesity, type 2 diabetes mellitus, hypertension etc. Some lncRNAs, a novel class of long non-coding RNA larger than 200 nt, have been reported to be involved in the pathogenesis of type 2 diabetes mellitus and metabolic syndrome (Singer & Sussel, 2018; Losko, Kotlinowski & Jura, 2016; Wang et al, 2018)

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