INFORMATION & RESOURCES
We are providing descriptions and links to all of the various Indexing Initiative COVID-19 related activities and resources on this page. We wanted to provide a single landing page for you to find all of these resources without having to go through the entire site.
As of May 1, 2020 - All of the Indexing Initiative tools (MetaMap Lite, MetaMap, SemRep, and MTI) have all been updated to use the UMLS 2020AA release which does contain a small set of COVID-19 related terms that can be identified by our tools. For a complete list of what specific strings are included please review our COVID-19 Terms Page: https://metamap.nlm.nih.gov/Covid19Terms.shtml.
We also have a special coronavirus addendum for the Specialist Lexicon (https://lhncbc.nlm.nih.gov/LSG/Projects/lexicon/current/web/index.html) since we are currently in the middle of our release schedule. This coronavirus specific addendum is compatible with all versions of the Specialist Lexicon.
SemRep processes both the LitCovid and CORD-19 datasets on a weekly basis. Please Note: These results are provided without the need of an UMLS Licence Agreement due to the nature of the data.
SemRep Options Used for Processing Both Datasets:
semrep -A -N -n -S -F -Z 2020AA
A: Anaphora resolution
Z 2020AA: use 2020AA data
*** LitCovid Results (151,586 distinct citations as of July 19, 2021):
*** CORD-19 Results Part II (623,267 distinct articles as of July 19, 2021):
semmedVER42_R is a superset of semmedVER41_R that in addition includes data derived from all PubMed citations downloaded on April 30, 2020 using the query --
( covid OR sars-cov-2 OR wuhan OR coronavirus OR 2019-ncov OR sars ) AND 2019:2020[dp]
The additional COVID-19 citations were processed with SemRep and the 2020AA UMLS data, which includes COVID-19 terms in CUIs C5203670, C5203671, C5203672, C5203673, C5203674, C5203675, and C5203676.
To Download the SemMedDB Database click here.
UMLS 2020AA release does contain a small set of COVID-19 related terms that can be identified by our tools. For a complete list of what specific strings are included please review our COVID-19 Terms Page: https://metamap.nlm.nih.gov/Covid19Terms.shtml
MetaMap Lite Downloads: https://metamap.nlm.nih.gov/MetaMapLite.shtml
MetaMap Downloads: https://metamap.nlm.nih.gov/DataSetDownload.shtml