Welcome to the HMDD v2.0

HMDD (the Human microRNA Disease Database) is a database that curated experiment-supported evidence for human microRNA (miRNA) and disease associations. miRNAs are one class of important regulatory RNAs, which mainly repress gene express at the post-transcriptional level. Increasing reports have shown that miRNAs play important roles in various critical biological processes. For their importance, the dysfunctions of miRNAs are associated with a broad spectrum of diseases. The first version of HMDD was built on December 2007. Each entry in HMDD v1.0 has four items for annotation; they are miRNA name, disease name, the reference PubMed ID, and the evidence supporting the miRNA-association from the original paper. During the past five years, we updated HMDD for more than 30 times. HMDD v2.0 presents more detailed and comprehensive annotations to the human miRNA-disease association data, including miRNA-disease association data from the evidence of genetics, epigenetics, circulating miRNAs, and miRNA-target interactions. In addition, a “submission” function was implemented in the version 2.

Statistics:
Currently, HMDD collected 10368 entries that include 572 miRNA genes, 378 diseases from 3511 papers.

History:
June 20, 2013, HMDD v2.0 was released.
January, 2012, the HMDD has been updated for 27 times during the past four years.
January, 2011, the HMDD has been updated for 19 times during the past three years.
October, 2008, an analysis paper based on the miRNA-disease association data in the HMDD database was published on PLoS ONE.
December, 2007, the original HMDD database was released.

Contact us
Dr. Qinghua Cui, 38 Xueyuan Rd, Department of Biomedical Informatics, Peking University Health Science Center, Beijing 100191, China
Email: cuiqinghua@hsc.pku.edu.cn
Homepage: http://www.cuilab.cn/

Last Update: Sep-30, 2013

    You can search the entries by such keywords:

    In the "Search" result, each entry has 4 items.

    (1) miRNA name

    (2) Disease name

    (3) Reference

    (4) Description

    The whole dataset of miRNA-disease association data ( txt or excel).

    The miRNA-disease association data from circulation ( txt or excel).

    The miRNA-disease association data from genetics ( txt or excel).

    The miRNA-disease association data from epigenetics ( txt or excel).

    The miRNA-disease association data from miRNA-target interactions ( txt or excel).

    The disease spectrum width data of miRNAs ( txt ).

    The miRNA spectrum width data of diseases ( txt ).

    Welcome to submit new entries to the database.

      miRNA name (*)

      Disease (*)

      Reference PubMed ID

      Your email (*)

    More introduction (limited to 500 words)

    Click here to     or  

    HMDD v2.0 Tutorial

    June-20, 2013

    MicroRNAs (miRNAs) are one class of important regulatory noncoding RNAs, which is ~22nt in length and mainly repress gene expression at post-transcriptional level. Emerging evidence has shown that miRNAs play critical roles in various important biological processes and therefore the dysfunctions related with miRNAs are often associated with human disease, including cancer and cardiovascular disease. Therefore, miRNAs are representing one class of important biological molecules in understanding the mechanisms of disease formation and development, and in identifying biomarkers for disease diagnosis and treatment.

    HMDD (the Human microRNA Disease Database) is a resource that curated experimentally supported miRNA and disease association data. HMDD was originally constructed on December 2007 and was updated more than 30 times during the past five years. On June 2013, we released HMDD version 2 (HMDD v2.0). In the new version, we curated miRNA-disease association data in more details, such as data from genetics, and epigenetics, data from samples of circulation (such as blood, serum, and plasma etc), and data from miRNA-target interactions. Currently, users can browse and search the database by the names of miRNAs and disease. Moreover, users can download all data in HMDD v2.0, including all miRNA-disease association data, miRNA-disease association data from genetics, miRNA-disease association data from epigenetics, miRNA-disease association data from circulation samples, and miRNA-disease association data from miRNA-target interactions.

    The detailed usage of the database is as followings:

    [1] Visiting HMDD v2.0: Log on HMDD at http://cmbi.bjmu.edu.cn/hmdd or http://www.cuilab.cn/hmdd. We also maintained the old version of HMDD at http://cmbi.bjmu.edu.cn/hmdd1 or http://202.38.126.151/hmdd/mirna/md/

    [2] To browse miRNA-disease association data in the database, please click the menu "Browse" (1 in Figure 1). For example for the miRNA-disease association data from miRNA-target interactions, select “Target” (step 1). To browse the entries related to the candidate disease, please click “disease” (step 2) and select the one you are interested in (step 3). The result will be shown in the right panel. Clicking “click to download” to download the browsing result (step 4). To browse the entries related to the candidate miRNA, please click “miRNA” and select the one you are interested in. For other types of miRNA-disease association data, please select specific browse options, such as “genetics”, “epigenetics”, and “circulation”.

    Figure 1. A demo for browsing data in the database

    [3] To search data in the database, select the menu "Search". HMDD v2.0 provides functions of "search" by full or partial names of miRNAs or diseases. Input your candidate keywords into corresponding blanks and submit the query.

    Each “search” will return entries including the following four items.

    (1) miRNA name

    (2) Disease name

    (3) Reference –The PMID links to the reference in PubMed.

    (4) Description - detailed description of the miRNA-disease association.

    [4] To download data in the database, select the menu "Download". HMDD v2.0 provides two formats of downloadable file in TEXT and Excel formats, respectively. The users can download all data in HMDD v2.0, including the experimentally supported miRNA-disease association data, miRNA-disease association data from genetics, miRNA-disease association data from epigenetics, miRNA-disease association data from circulation samples, and miRNA-disease association data from miRNA-target interactions.

    [5] To submit new entries to the database, select the menu "Submit". The users need to input their data into corresponding blanks and then submit the query. We will further curate the submitted information to determine whether to add the new entries to the database or not.

    [6] Currently, all data in HMDD is free only for academic users and please contact Dr. Qinghua Cui for commercial using. If you used the data in HMDD v2.0, please cite “Lu M, Zhang Q, Deng M, Miao J, Guo Y, et al. (2008) An Analysis of Human MicroRNA and Disease Associations. PLoS ONE 3(10): e3420.”

    If there are any comments or suggestions, please contact Dr. Qinghua Cui at cuiqinghua@bjmu.edu.cn or cuiqinghua@hsc.pku.edu.cn.


    Citation: Lu M, Zhang Q, Deng M, Miao J, Guo Y, Gao W, Cui Q. An analysis of human microRNA and disease associations. PLoS One. 2008;3(10):e3420.

    Li Y, Qiu C, Tu J, Geng B, Yang J, Jiang T, and Cui Q. HMDD v2.0: a database for experimentally supported human microRNA and disease associations. Nucl. Acids Res.(2013) doi: 10.1093/nar/gkt1023.