HMDD v3.0: a database for experimentally supported human microRNA-disease associations.

Zhou Huang,Jianwei Li,Yuanxu Gao,Chunmei Cui,Shan Zhang,Yuan Zhou,Jiangcheng Shi,Qinghua Cui

doi:10.1093/nar/gky1010

Abstract

Comprehensive databases of microRNA–disease associations are continuously demanded in biomedical researches. The recently launched version 3.0 of Human MicroRNA Disease Database (HMDD v3.0) manually collects a significant number of miRNA–disease association entries from literature. Comparing to HMDD v2.0, this new version contains 2-fold more entries. Besides, the associations have been more accurately classified based on literature-derived evidence code, which results in six generalized categories (genetics, epigenetics, target, circulation, tissue and other) covering 20 types of detailed evidence code. Furthermore, we added new functionalities like network visualization on the web interface. To exemplify the utility of the database, we compared the disease spectrum width of miRNAs (DSW) and the miRNA spectrum width of human diseases (MSW) between version 3.0 and 2.0 of HMDD. HMDD is freely accessible at http://www.cuilab.cn/hmdd. With accumulating evidence of miRNA–disease associations, HMDD database will keep on growing in the future.

Highlights

MicroRNAs are an important class of small non-coding RNA molecules that regulate gene expression by targeting mRNAs for cleavage or translational repression [1,2]
We built the first version of human microRNA disease database (HMDD) on December 2007 [6] and released the second version on June 2013 [7]
In the HMDD v2.0 [7], we introduced a similar measurement for each disease, i.e. miRNA spectrum width (MSW) of a disease

Summary

Introduction

MicroRNAs (miRNAs) are an important class of small non-coding RNA molecules that regulate gene expression by targeting mRNAs for cleavage or translational repression [1,2]. It is of urgent demand to update the database for more comprehensive data coverage and more accurate classifications of the miRNA–disease association evidence. HMDD v3.0 has collected 32281 experimentally supported miRNA–disease association entries, covering 1102 miRNA genes, 850 diseases from 17412 papers.

Results

Conclusion