Simultaneous detection of pathogens and antimicrobial resistance genes with the open source, cloud-based, CZ ID platform
In sum, the new AMR module advances the capabilities of the open-access CZ ID microbial bioinformatics platform by integrating pathogen detection and AMR profiling from mNGS and single-isolate WGS data. Its development represents an important step toward democratizing pathogen genomic analysis and supporting collaborative efforts to combat the growing threat of AMR.
Authors
- Charles Langelier (ORCID: https://orcid.org/0000-0002-6708-4646)
- Ann E. Jones (ORCID: https://orcid.org/0000-0003-1148-7275)
- Peter M. Mourani (ORCID: https://orcid.org/0000-0002-1829-3775)
- Ryan G. Lim (ORCID: https://orcid.org/0000-0001-6388-5158)
- Andrew G. McArthur (ORCID: https://orcid.org/0000-0002-1142-3063)
- Olivia Holmes
- Lucia Reynoso
- Victoria Chu (ORCID: https://orcid.org/0000-0002-7480-965X)
- Elizabeth Fahsbender (ORCID: https://orcid.org/0000-0002-1801-051X)
- Brian Alcock (ORCID: https://orcid.org/0000-0002-5129-4673)
- Xochitl Butcher (ORCID: https://orcid.org/0000-0002-4001-9633)
- Amogelang R. Raphenya (ORCID: https://orcid.org/0000-0001-9259-5280)
- Amy J. Pickering (ORCID: https://orcid.org/0000-0001-6193-2221)
- Abigail Glascock (ORCID: https://orcid.org/0000-0002-6919-2632)
- Jennifer Tang (ORCID: https://orcid.org/0000-0001-9491-5022)
- Katrina Kalantar (ORCID: https://orcid.org/0000-0003-0281-4625)
- Karyna Rosario (ORCID: https://orcid.org/0000-0001-9847-4113)
- Erin Hoops
- Suzette McCanny
- Nina Bernick
- Kirsty Ewing
- Dan Lu (ORCID: https://orcid.org/0000-0001-7811-8250)
- Omar Valenzuela
- Estella Sanchez Guerrero
Institutions
- Arkansas Children's Hospital (US)
- University of California, San Francisco (US)
- Nova Southeastern University (US)
- Chan Zuckerberg Initiative (United States) (US)
- University of Arkansas for Medical Sciences (US)
- University of California, Berkeley (US)
- McMaster University (CA)
Publication Details
- Journal
- Genome Medicine
- Published
- 2025-05-06
- DOI
- https://doi.org/10.1186/s13073-025-01480-2
- Citations
- 8
- Primary Topic
- Bacterial Identification and Susceptibility Testing
- Type
- article
- Field-Weighted Citation Impact
- 10.55
Funders
- McMaster University
- Chan Zuckerberg Initiative
- National Institutes of Health
- Canadian Institutes of Health Research
- National Heart, Lung, and Blood Institute