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UMLS

Note: See UMLS install notes with regards to issues with mySQL v5.

UMLS stands for Unified Medical Language System. More info can be found here - official page.The UMLS is a set of files and software that brings together many health and biomedical vocabularies and standards to enable interoperability between computer systems.You can use the UMLS to enhance or develop applications, such as electronic health records, classification tools, dictionaries and language translators. UMLS contains three tools (called also Knowledge bases):

1. Metathesaurus: Terms and codes from many vocabularies, including CPT®, ICD-10-CM, LOINC®, MeSH®, RxNorm, and SNOMED CT®
2. Semantic Network: Broad categories (semantic types) and their relationships (semantic relations)
3. SPECIALIST Lexicon and Lexical Tools: Natural language processing tools

The Semantic Network and Lexical Tools are implemented in order to produce the Metathesaurus. Metathesaurus production involves:

    * Processing the terms and codes using the Lexical Tools
    * Grouping synonymous terms into concepts
    * Categorizing concepts by semantic types from the Semantic Network
    * Incorporating relationships and attributes provided by vocabularies
    * Releasing the data in a common format

Although we integrate these tools for Metathesaurus production, they can be accessed separately or in any combination according to the user needs. On GNODE UMLS metamorphosys is installed. MetamorphoSys is the UMLS installation wizard and Metathesaurus customization tool included in each UMLS release (Currently the version installed is 2011AA). MetamorphoSys installs one or more of the UMLS Knowledge Sources and enables you to create customized Metathesaurus subsets. Each UMLS release includes an updated version of MetamorphoSys.

Note: Use only the version of MetamorphoSys distributed with the most current UMLS release.

To run metamorphosys type:

./run_linux.sh (you must be inside the folder /mmsys) and choose create a new subset.

To populate with data metamorphosys, click open and choose the following path mmsys/2011AA/meta and voila!

It should be taken under consideration that instead of using metamorphosys to create subsets of data, you can actually browse them here, through the metathesaurus browser. You can choose the type of the concept as well as other options are available for the returned result list. You need though to be able to login and having a UMLS licence. If somebody wants to navigate or even download something, contact George( to provide you the licence number and credentials).