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Important!

Public Health Ontario has discontinued the Ontario COVID-19 Data Tool, Respiratory Virus Overview in Ontario report and Ontario Respiratory Pathogen Bulletin. The new Ontario Respiratory Virus Tool consolidates information from these resources by providing information on respiratory virus surveillance data in Ontario all in one place. Learn more about these changes: Public Health Ontario Launches New Ontario Respiratory Virus Tool

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Infectious Disease COVID-19 Data and Surveillance
Phylogenetic Analysis of SARS-CoV-2 in Ontario

Phylogenetic Analysis of SARS-CoV-2 in Ontario

Genome sequencing, analysis and epidemiology of SARS-CoV-2 is important for understanding the evolution and spread of SARS-CoV-2 in Ontario. This interactive tool supports genomics researchers and experts, epidemiologists, virologists and public health experts explore the evolutionary relationships between SARS-CoV-2 sequences and view the genetic diversity across the entire genome.

Data in the tool can be filtered by:
  • Ontario Health Region
  • Pango lineages, including variants of concern lineages
  • age group
  • sex
  • genotype
  • country
  • Clades: Nextstrain and GISAID

This image shows a phylogenic (evolutionary) tree and a map of SARS-CoV-2 sequences in Ontario. It is a screen shot from the Nextstrain tool to show an example of what the tool looks like.

View Phylogenetic Analysis of SARS-CoV-2 in Ontario

The data in this tool includes SARS-CoV-2 samples sequenced at Public Health Ontario and does not include samples sequenced at other laboratories at this time. 
 

The tool is updated Thursday between 4 and 6 p.m. ET and may be unavailable at this time. View the Technical Notes for more information on what is included in the tool.

 
The tool is best viewed using Google Chrome, Mozilla Firefox and Microsoft Edge.

Nextstrain

This interactive tool uses the open source platform Nextstrain, which provides powerful analytic and visualization tools to support genomic analysis of pathogens like SARS-CoV-2.

To learn more about Nextstrain or support using and interpreting data in the tool, visit the Nextstrain documentation webpage for a variety of resources, tutorials and user-guides.

 

Find Information On...

Coronavirus Disease 2019 (COVID-19)

Documents, resources and related links for COVID-19, a respiratory illness caused by the SARS-CoV-2 virus that emerged in late 2019 and quickly spread worldwide, resulting in a global pandemic.

Variants of Concern

Resources for testing for and monitoring of COVID-19 variants of concern found in Ontario.

Ontario Respiratory Virus Tool

This tool provides comprehensive epidemiological information of respiratory virus activity in Ontario, including COVID-19, influenza and other respiratory viruses. Explore case trends, laboratory testing, and outbreaks, as well as COVID-19 outcomes and vaccination.

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PHO Rounds: Doxy-PEP for STI Prevention in Cisgender gbMSM, PLHIV and Trans Women

In this Rounds presentation, presenters will explore research on doxy-PEP and various vital considerations for this STI prevention strategy.

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Laboratory Data Contact

Lab.Data@oahpp.ca

Updated 3 Aug 2023
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