Simultaneous detection of pathogens and antimicrobial resistance genes with the open source, cloud-based, CZ ID pipeline

Abstract excerpt

Antimicrobial resistant (AMR) pathogens represent urgent threats to human health, and their surveillance is of paramount importance. Metagenomic next generation sequencing (mNGS) has revolutionized such efforts, but remains challenging due to the lack of open-access bioinformatics tools capable of simultaneously analyzing both microbial and AMR gene sequences. To address this need, we developed the Chan Zuckerberg...

Topics

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• Bacterial Identification and Susceptibility Testing
• Cross Infection
• Drug Resistance, Bacterial
• Genome, Bacterial
• Multilocus Sequence Typing
• Polymorphism, Single Nucleotide
• Respiratory viral infections research
• Whole Genome Sequencing

Identifiers and source

Literature Corpus work

05a8b771-49b6-57d6-8f8d-98570249d7d9

DOI

10.1101/2024.04.12.589250