Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation

Pathogen Detection Resources at Google Cloud Platform Main documentation page

NCBI Pathogen Detection provides data at Google Cloud Platform in two places: The MicroBIGG-E and Isolates Browser tables are in Google BigQuery and MicroBIGG-E sequences FASTA format are in Google Cloud Storage.

Pathogen Detection Resources available on the Google Cloud

Documentation for Pathogen Detection resources at Google Cloud

ASM NGS 2022 Workshop

We participated in a workshop at ASM NGS 2022 which included some projects that demonstrate how to use our resources in the cloud. See the Workshop Setup, Project 1: Use BigQuery to search MicroBIGG-E and Isolates data, Project 2: Generate tree of KPC alleles to examine evolution of size variants , and Project 3: Selection analysis on 293-aa blaKPC genes for examples of how to use NCBI Pathogen Detection data in the cloud.

Update frequency

Pathogen Detection data at Google Cloud Platform is updated daily, so updated results may lag behind results presented in the browsers or on FTP by up to one day.

Tools

Google docs

Don't have a cloud account?

NIH Science and Technology Research Infrastructure for Discovery, Experimentation, and Sustainability (STRIDES) Initiative has launched a new NIH Cloud Lab program that lets you experiment with using cloud for your research. You can request a GCP or AWS account, and will receive $500 and three months, in addition to access to biomedical tutorials that walk you through common cloud-based research use cases. This is available to intramural researchers currently but expect it to be ready for extramural researchers in the coming months. Learn more via this link- https://cloud.nih.gov/resources/cloudlab/


If you have any questions or issues or anything that you need let us know at pd-help@ncbi.nlm.nih.gov