Excel · dataset · 2023
COVID-19 Variant Data (ARCHIVED)
Listed in California Open Data
__Note:__ This dataset is no longer being updated due to the end of the COVID-19 Public Health Emergency.
Description
The California Department of Public Health (CDPH) is identifying the prevalence of circulating SARS-CoV-2 variants by analyzing CDPH Genomic Surveillance Data and CalREDIE, CDPH's communicable disease reporting and surveillance system. Viruses mutate into new strains or variants over time.
Some variants emerge and then disappear. Other variants become common and circulate for a long time. Several specialized laboratories statewide sequence the genomes of a fraction of all positive COVID-19 tests to determine which variants are circulating.
Read the rest (3 more)
Sequencing and reporting of variant results takes several days after a test is identified as a positive for COVID-19. Not all viruses from positive COVID-19 tests are sequenced. Knowing what variants are circulating in California informs public health and clinical action.
Note
There is a natural reporting lag in these data due to the time commitment to complete whole genome sequencing; therefore, a 14 day lag is applied to these datasets to allow for data completeness. Please note that more recent data should be used with caution. For more information, please see: cdph.ca.gov/Programs/CID/DCDC/Pages/COVID-19/COVID-Variants.aspx
Links
Get the data
- All resource data data.chhs.ca.gov/dataset/52e4aa7a-2ea3-4bfd-8cd6-7d653db1ee74/resource/01974d7e… ↗
download · from data ca gov
- COVID 19 Variant Data data.chhs.ca.gov/dataset/52e4aa7a-2ea3-4bfd-8cd6-7d653db1ee74/resource/d7f9acfa… ↗
download · from data ca gov
- COVID-19 Variant Data Dictionary data.chhs.ca.gov/dataset/52e4aa7a-2ea3-4bfd-8cd6-7d653db1ee74/resource/94b6815e… ↗
download · from data ca gov
Where it is published
- California Open Data dataset page data.ca.gov/dataset/covid-19-variant-data-archived ↗
landing page · from data ca gov
Documentation and papers
- Publisher page cdph.ca.gov/Programs/CID/DCDC/Pages/COVID-19/COVID-Variants.aspx ↗
documentation · from data ca gov
Catalogue records · 1
- CKAN API data.ca.gov/api/3/action/package_show?id=197ba3e2-33cb-47f0-b334-ad4dc93db… ↗
metadata API · from data ca gov
Topics
- Stated by source
- COVID-19 · Health and Human Services
- From keywords
- Life Sciences · Medicine & Health · Sequencing
- Inferred from text
- Disease 75% · Genome sequencing 75%
Provenance · 1 source records, 14 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| California Open Data | 197ba3e2-33cb-47f0-b334-ad4dc93dbeff | 10 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · data ca gov | connector:data_ca_gov@1.0.0 | |
| concepts[disease].local:disease:disease | enrichment · data ca gov | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].local:field:life-sciences | mapping · data ca gov | connector:data_ca_gov@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · data ca gov | connector:data_ca_gov@1.0.0 | |
| concepts[modality].local:modality:genome-sequencing | enrichment · data ca gov | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:sequencing | mapping · data ca gov | vocabulary-mapper@1.0.0 | keywords['Sequencing'] |
| concepts[topic].ckan_group:data_ca_gov:covid-19 | source · data ca gov | connector:data_ca_gov@1.0.0 | |
| concepts[topic].ckan_group:data_ca_gov:health-human-services | source · data ca gov | connector:data_ca_gov@1.0.0 | |
| created_date | source · data ca gov | connector:data_ca_gov@1.0.0 | |
| description | source · data ca gov | connector:data_ca_gov@1.0.0 | /notes |
| license_text | source · data ca gov | connector:data_ca_gov@1.0.0 | |
| publication_date | source · data ca gov | connector:data_ca_gov@1.0.0 | |
| title | source · data ca gov | connector:data_ca_gov@1.0.0 | /title |
| updated_date | source · data ca gov | connector:data_ca_gov@1.0.0 |