About Gene2MeSH

Overview

Gene2Mesh is part of the NIH's National Center for Integrative Biomedical Informatics (NCIBI).

Gene2MeSH uses a statistical approach to reliably and automatically annotate genes with the concepts defined in MeSH, the National Library of Medicine’s controlled vocabulary for biology and medicine. The Gene2MeSH web application searches gene symbols or MeSH terms and displays resulting pairs of genes and MeSH terms that match the search term. The gene / MeSH term pairs displayed are those that are significantly associated in PubMed abstracts and are ordered highest to lowest by significance score.

How Gene2MeSH is Created

The NCIBI PubMed database is downloaded from the NLM, parsed and loaded into a relational database. MeSH indexing terms are used as provided by the NLM distribution. The significance of association between genes and MeSH terms are calculated by using Fisher’s Exact test. Gene2MeSH is updated monthly.

Gene2MeSH Quick Start Guide

Using Gene2MeSH

Tips:

Gene2MeSH Programmatic Interface

NCIBI provides web service access to Gene2MeSH and other NCIBI databases outside of the regular web page interface. Programmatic access may be useful for integrating Gene2MeSH data into an analytic workflow or data pipeline.

Click here to go to the NCIBI web services information page for Gene2MeSH.

Licensing and Terms of UseLicensing and Terms of Use

Gene2MeSH is both a website that integrates data and the application of research and open source software to the problem of supporting that website. The data integration service is supplied under the conditions of the original data sources and the specific terms of use for Gene2MeSh. Access to this website is provided free of charge. Permission is granted to use this software and data internally only, so long as no fee is charged, usage of this website is cited in any resulting publications involving results from such use, and so long as the name of the University of Michigan is not used in any advertising or publicity pertaining to such use without specific, written prior authorization. Permission to redistribute this data in any form is specifically not granted.

The Regents of the University of Michigan does not check this data for errors or omissions, and by its nature, the data included herein likely contains errors and omissions. Access and use is provided as is, without representation as to its fitness for any purpose, and without warranty of any kind, either express or implied, including without limitation the implied warranties of merchantability and fitness for a particular purpose. The Regents of the University of Michigan shall not be liable for any damages, including special, indirect, incidental, or consequential damages, with respect to any claim arising out of, or in connection with, the use of this website or data, even if it has been or is hereafter advised of the possibility of such damages.

How to Cite Gene2MeSH

Ade, AS; Wright, ZC; States, DJ; Gene2MeSH [Internet]. Ann Arbor (MI): National Center for Integrative Biomedical Informatics. 2007 Mar. Available from http://gene2mesh.ncibi.org

Additional Help and Support

For additional Gene2MeSH support and/or any questions regarding Gene2MeSH email ncibi-list@umich.edu

www.ncibi.org - For support and questions email: ncibi-list@umich.edu