COVID-19 Data Holdings

This data holding contains provincial COVID-19 PCR test results pulled from the Ontario Laboratories Information System (OLIS). There are 6 files in this data library, including COVID19_OLIS_MDS (this is the original minimum dataset received by ICES from Ontario Health Digital Services, with the addition of ICES-generated variables to flag lab tests for COVID-19 and as well as other respiratory viruses), COVID19_OLIS_EPI (the recommended analytical dataset created by ICES which aggregates information from COVID19_OLIS_MDS by individual + testing date [i.e., testing episode], in order to represent the overall COVID-19 testing result status for each tested individual on each day), COVID19_OLIS_EPI_RAPID (rapid molecular test results), COVID19_SYMPTOMS (symptoms dataset derived from free text information found in OLIS COVID-19 data), HOSPITAL_EXTRACT (hospital extract data) and LAB_AND_SCC_EXTRACT (lab and specimen collection centre extract data).

C19INTGR is a comprehensive dataset created by ICES of all available COVID-19 diagnostic laboratory results in Ontario. Earlier in the pandemic, not all labs contributed their lab results to the Ontario Laboratories Information System (OLIS), resulting in under-reporting of COVID-19 tests and positive COVID-19 cases. This dataset is derived from 3 data sources: 1. OLIS (COVID-19 testing episodes using standard PCR tests, from January 2020 to current); 2. Distributed testing data from laboratories (DL) within the COVID-19 Diagnostic Network (up to April 13, 2020; prior to a requirement to report all test results in OLIS, the results of tests performed by labs that were part of this network were compiled by PHO in a separate database); and 3. Public Health Case & Contact Management (CCM) Solution, formerly known as iPHIS (a client-level dataset for individuals who are confirmed positive for COVID-19 based on the provincial case definition, from January 2020 to current).

Vaccination data includes three separate tables containing vaccination, appointment, and screening information.

The purpose of the Vaccinations data is to provide a weekly update on the number and types of COVID-19 vaccinations that are provided in the province of Manitoba.

The purpose of the Appointments data is to collect and record the COVID-19 vaccination appointments made in the on-line system, including changes/cancellations to appointments.

The purpose of the Screening data is to collect and record screening data on the types of people being vaccinated and specific indicators that are under consideration.

COVaxON is the central provincial database developed as a point-of-care system to support: Scheduling, Client registration, COVID-19 vaccine administration and documentation, COVID-19 vaccine management, Reporting of COVID-19 vaccination in Ontario. The Ministry of Health (MOH) compiles and manages these data and Public Health Ontario (PHO) (as an agent of the MOH) provides ICES with a client-level dataset containing information on COVID-19 vaccination events, including: Date(s) of dose administration, Reason for administration, Vaccine product information, Location and responsible Public Health Unit for vaccination event, Client information (e.g., date of birth, demographics [age, sex], postal code of residence). PHO applied data cleaning logic to de-duplicate implausible vaccination events (e.g., >1 dose with the same administration date, doses within <14 days) and selected events that closely align with the recommended immunization schedule and minimal intervals. Each observation contains all COVID-19 doses for an individual. Second doses will be captured under the same observation if administered.

Data containing information on COVID-19 vaccinations for individuals receiving a dose of COVID-19 vaccine in Newfoundland and Labrador.

The Case and Contact Management System (CCM) is a central data repository for COVID-19 case and contact management, and reporting in Ontario. The Health Protection and Promotion Act requires that each public health unit in Ontario collect information about people with diseases of public health significance (reportable diseases), including COVID-19, in their jurisdiction and report it to the Ministry of Health (MOH). This information is used for local, provincial and national surveillance. Between July and August 2020, CCM replaced the integrated Public Health Information System (iPHIS) for COVID-19 for most health units in the province. COVID-19 cases in iPHIS were migrated over to CCM with key reporting elements. iPHIS is used for collecting information on all other reportable diseases in Ontario. The numbers of cases of COVID-19 in CCM is an underestimate of the actual numbers since not all people with COVID-19 develop symptoms, seek medical treatment or testing, and therefore, the disease goes unreported.