EVS Vocabulary Processing
EVS licenses and serves third party terminology as needed to meet NCI and caBIG requirements. These vocabularies come to EVS from a variety of sources and in a variety of formats. Though the LexBIG application is able to import most of these formats directly, a few terminologies require further processing before they can be loaded. Details on terminology sources, formats and processing are provided on this page.
Locally produced vocabularies
EVS produces the following vocabularies and makes them available through the LexEVS API and various browsers (NCIt Browser, NCI Metathesaurus Browser).
Name | Source | URL for Download | Secured? | Format | Size | Processing Notes |
---|---|---|---|---|---|---|
NCI MetaThesaurus | N/A | RRF | 5.4G | |||
NCI Thesaurus | N/A | OWL | 290M | |||
CTCAE | Common Terminology Criteria for Adverse Events | http://evs.nci.nih.gov/ftp1/CTCAE/About.html | NA | OWL | 1M | N/A |
External vocabularies published by EVS
EVS makes available a number of terminologies through the NCI Browser and API that are produced by sources outside the NCI.
Chemical Entities of Biological Interest
Name | Source | URL for Download | Secured? | Format | Size | Processing Notes |
---|---|---|---|---|---|---|
Gene Ontology | N/A | OBO | 12M | None | ||
HL7 | N/A | RIM database | 32M | None | ||
NDF-RT | N/A | OWL | 4M | Converted from datafile to OWL by Lockheed Martin | ||
The MGED Ontology | N/A | OWL | 1M | None | ||
UMLS | http://www.nlm.nih.gov/research/umls/licensedcontent/umlsknowledgesources.html | RRF | 22G | See UMLS Subsets table below | ||
UMLS SemNet | N/A | RRF | 1M | None | ||
Zebrafish | N/A | OBO | 1M | None | ||
ChEBI | Chemical Entities of Biological Interest | ftp://ftp.ebi.ac.uk/pub/databases/chebi/ontology/chebi.obo | N/A | OBO | 1M | None |
Mouse Anatomy | Mouse Adult Gross Anatomy | http://www.berkeleybop.org/ontologies/ma.obo | N/A | OBO | 1M | None |
HGNC | Hugo Gene Nomenclature Committee Ontology | ftp://ftp.ebi.ac.uk/pub/databases/genenames/hgnc_complete_set.txt.gz | NA | Flat | 1M | Convert to OWL |
OBI | Ontology for Biomedical Investigations | http://svn.code.sf.net/p/obi/code/releases/2012-07-01/merged/merged-obi-comments.owl | NA | OWL | 1M | None |
UMLS subsets published by EVS
The UMLS is not published in entirety. Instead a number of subset ontologies are extracted and published.
Name | Original Source | Secured? | Size of subset | Processing Notes |
---|---|---|---|---|
LOINC | N/A | 500M | None | |
MedDRA | 193M | None | ||
Snomed | International Health Terminology Standards Development Organization | 7.4G | None | |
ICD9 | N/A | 180M | None | |
ICD9CM | N/A | 210M | None | |
ICD10 | N/A | 121M | None | |
ICD10CM | N/A | 285M | None | |
PDQ | Physicians Data Query | N/A | 160M | None |
RadLex | http://www.rsna.org/radlex | N/A | 179M | None |