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This LexEVS loader command loads input in OWL format. Substituting the matching LexEVS loader command for the source format being used and pointing the loader to a local file will load most terminologies. For example, the OBO source format would be loaded by the LoadOBO command. In the LexEVS administrative GUI, all of the various source format loaders are found under the "Load Terminology" menu. The administrative options must be enabled first in the Command menu.

It is important to note that many terminology providers produce more than one source format that can be downloaded. Things like text only, CSV, tab delimited, and spreadsheets are not acceptable source formats for LexEVS. If you can not find an acceptable source format for a popular terminology there are potentially a couple other ways to download them. This is true of things like LOINC, SNOMED, and MedDRA, etc.

  1. Get the entire UMLS terminology and subset it with a tool called MetamorphoSys.
  2. Try to download versions that have been placed on BioPortal.

Best Practices

As you work with terminologies in LexEVS there are some things that you will find are the best way to approach things to make life easy as far as loading goes.

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Some terminologies are special cases and need special handling.   Included in this category are the NCI Thesaurus in the OWL source format and any files in the UMLS RRF (Rich Release Format) source format. The NCI MetaThesaurus Each of these has its own documentation:

Special Case

How to handle

Installing NCI Vocabularies

The NCI Thesaurus differs from other OWL formatted resources and as a result you should follow this documentation.
The NCI Metathesaurus is the largest terminology to be loaded and as such it also requires special handling.

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Installing OWL Formatted terminologies

OWL terminologies do not normally require special handling, but LexEVS offers some advanced loading options users may take advantage of.

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Installing Vocabularies from the UMLS Metathesaurus (RRF)

Terminologies in RRF format typically come from the National Library of Medicine's (NLM) Unified Medical Language System (UMLS). Many terminologies are a subset of the UMLS such as LOINC, SNOMED, MedDRA, HUGO, GO, and ICD to name a few. The terminology you're interested in is a subset of the UMLS if:

None of the above match and you cannot find a suitable source format.

Many terminology providers produce more than one source format that can be downloaded. Source formats such as text only, CSV, tab delimited, and spreadsheets are not acceptable source formats for LexEVS. If you can not find an acceptable source format for a terminology to load into LexEVS then one option is to download versions that have been placed on BioPortal. These may not be the latest versions available but are easy to download. If you end up with a with a terminology that is not one of the special cases above then you should return to the generic loading instructions.

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