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Literature DB >> 18998805

UMLS-Query: a perl module for querying the UMLS.

Nigam H Shah¹, Nigam Shah, Mark A Muse, Mark Musen.

Abstract

The Metathesaurus from the Unified Medical Language System (UMLS) is a widely used ontology resource, which is mostly used in a relational database form for terminology research, mapping and information indexing. A significant section of UMLS users use a MySQL installation of the metathesaurus and Perl programming language as their access mechanism. We describe UMLS-Query, a Perl module that provides functions for retrieving concept identifiers, mapping text-phrases to Metathesaurus concepts and graph traversal in the Metathesaurus stored in a MySQL database. UMLS-Query can be used to build applications for semi-automated sample annotation, terminology based browsers for tissue sample databases and for terminology research. We describe the results of such uses of UMLS-Query and present the module for others to use.

Mesh：

Year: 2008 PMID： 18998805 PMCID： PMC2656020

Source DB: PubMed Journal: AMIA Annu Symp Proc ISSN： 1559-4076

14 in total

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6. Ontology-based annotation and query of tissue microarray data.

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10. Ontology-driven indexing of public datasets for translational bioinformatics.

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