Overview
The COVID-19-specific variables in i2b2 are based on an ontology developed by Visweswaran, Shyam et al1 in an effort to harmonize COVID-19 data in the electronic medical records across several institutions. There are 50,000+ concepts in this ontology that are available for researchers to query in i2b2. The ontology is publicly available at https://github.com/shyamvis/ACT-COVID-Ontology
1Visweswaran, Shyam et al. “Development of a Coronavirus Disease 2019 (COVID-19) Application Ontology for the
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Accrual to Clinical Trials (ACT) network.” JAMIA open vol. 4,2 ooab036. 19 Apr. 2021, doi:10.
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1093/jamiaopen/ooab036
Inclusion Criteria for COVID-19 Cohort
Patients are included in the COVID-19 dataset if they meet at least one criterion from any of the following categories:
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94500-6 - SARS coronavirus 2 RNA (qualitative) (Respiratory specimen) 94533-7 - SARS coronavirus 2 N gene (qualitative) (Respiratory specimen) 94534-5 - SARS coronavirus 2 RdRp gene (qualitative) (Respiratory specimen) 94532-9 - SARS-related coronavirus + MERS coronavirus RNA (qualitative) (Respiratory specimen) 94502-2 - SARS-related coronavirus RNA (qualitative) (Respiratory specimen) 94309-2 - SARS coronavirus 2 RNA (qualitative) (Unspecified specimen) 94316-7 - SARS coronavirus 2 N gene (qualitative) (Unspecified specimen) 94307-6 - SARS coronavirus 2 N gene (qualitative, CDC primer-probe set N1) (Unspecified specimen) 94308-4 - SARS coronavirus 2 N gene (qualitative, CDC primer-probe set N2) (Unspecified specimen) 94510-5 - SARS coronavirus 2 N gene (quantitative) (Unspecified specimen) 94311-8 - SARS coronavirus 2 N gene (quantitative, CDC primer-probe set N1) (Unspecified specimen) 94312-6 - SARS coronavirus 2 N gene (quantitative, CDC primer-probe set N2) (Unspecified specimen) 94315-9 - SARS coronavirus 2 E gene (qualitative) (Unspecified specimen) 94509-7 - SARS coronavirus 2 E gene (quantitative) (Unspecified specimen) 94314-2 - SARS coronavirus 2 RdRp gene (qualitative) (Unspecified specimen) 94511-3 - SARS coronavirus 2 ORF1ab region (quantitative) (Unspecified specimen) 94310-0 - SARS-like coronavirus N gene (qualitative) (Unspecified specimen) 94313-4 - SARS-like coronavirus N gene (quantitative) (Unspecified specimen) 94507-1 - SARS coronavirus 2 Ab.IgG (qualitative) (Serum or Plasma) 94505-5 - SARS coronavirus 2 Ab.IgG (quantitative) (Serum or Plasma) 94508-9 - SARS coronavirus 2 Ab.IgM (qualitative) (Serum or Plasma) 94506-3 - SARS coronavirus 2 Ab.IgM (quantitative) (Serum or Plasma) 94547-7 - SARS coronavirus 2 Ab.IgG+IgM (qualitative) (Serum or Plasma) |
Data Available
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Course of Illness
Diagnosis Data
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