Pathogen Detection (BETA)

Description

NCBI Pathogen Detection integrates bacterial pathogen genomic sequences originating in food, environmental sources, and patients. It quickly clusters and identifies related sequences to uncover potential food contamination sources, helping public health scientists investigate foodborne disease outbreaks.

Resources

Name Format Description Link
21 https://www.ncbi.nlm.nih.gov/pathogens/isolates/
21 antibiogram[filter] applied to BioSample https://www.ncbi.nlm.nih.gov/biosample/?term=antibiogram%5bfilter%5d
21 https://www.ncbi.nlm.nih.gov/pathogens/refgene/
21 Reference set of hidden Markov models (HMMs) used by AMRFinderPlus to identify protein families in conjunction with Reference Gene Catalog https://www.ncbi.nlm.nih.gov/pathogens/hmm/
21 https://ftp.ncbi.nlm.nih.gov/pathogen/Results/
21 This interface contains a subset of the isolates from the Isolate Browser that have genomic sequence data available in GenBank and have genotypes identified by AMRFinderPlus at the time they were analyzed. https://www.ncbi.nlm.nih.gov/pathogens/microbigge/

Tags

  • dataset
  • public-health

Topics

Categories