Pathogen Detection (BETA)
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.
Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[
"009:25"
]
|
| contactPoint |
{
"fn": "National Library of Medicine",
"@type": "vcard:Contact",
"hasEmail": "mailto:custserv@nlm.nih.gov"
}
|
| 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. |
| distribution |
[
{
"@type": "dcat:Distribution",
"title": "Reference HMM Catalog",
"mediaType": "text/html",
"description": "Reference set of hidden Markov models (HMMs) used by AMRFinderPlus to identify protein families in conjunction with Reference Gene Catalog",
"downloadURL": "https://www.ncbi.nlm.nih.gov/pathogens/hmm/"
},
{
"@type": "dcat:Distribution",
"title": "Pathogen Detection Microbial Browser for Identification of Genetic and Genomic Elements (MicroBIGG-E)",
"mediaType": "text/html",
"description": "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.",
"downloadURL": "https://www.ncbi.nlm.nih.gov/pathogens/microbigge/"
},
{
"@type": "dcat:Distribution",
"title": "Isolates with antibiotic resistant phenotypes",
"mediaType": "text/html",
"description": "antibiogram[filter] applied to BioSample",
"downloadURL": "https://www.ncbi.nlm.nih.gov/biosample/?term=antibiogram%5bfilter%5d"
},
{
"@type": "dcat:Distribution",
"title": "Download analysis results (FTP)",
"mediaType": "text/html",
"downloadURL": "https://ftp.ncbi.nlm.nih.gov/pathogen/Results/"
},
{
"@type": "dcat:Distribution",
"title": "Isolates Browser",
"mediaType": "text/html",
"downloadURL": "https://www.ncbi.nlm.nih.gov/pathogens/isolates/"
},
{
"@type": "dcat:Distribution",
"title": "Reference Gene Catalog",
"mediaType": "text/html",
"downloadURL": "https://www.ncbi.nlm.nih.gov/pathogens/refgene/"
}
]
|
| identifier | https://datadiscovery.nlm.nih.gov/api/views/4gse-hiry |
| issued | 2021-08-27 |
| keyword |
[
"dataset",
"public health"
]
|
| landingPage | https://www.ncbi.nlm.nih.gov/pathogens/ |
| license | http://opendefinition.org/licenses/odc-odbl/ |
| modified | 2025-06-18 |
| programCode |
[
"009:041"
]
|
| publisher |
{
"name": "National Library of Medicine",
"@type": "org:Organization"
}
|
| theme |
[
"Biomedical Research"
]
|
| title | Pathogen Detection (BETA) |
