Serratus: Ultra-deep Search for Novel Viruses - Versioned Data Release

Stream data with DDA:

from dagshub.streaming import DagsHubFilesystem

fs = DagsHubFilesystem(".", repo_url="https://dagshub.com/DagsHub-Datasets/serratus-lovelywater-dataset")

fs.listdir("s3://lovelywater")

Description:

Serratus is a collaborative open science project for ultra-rapid discovery of known and unknown coronaviruses in response to the COVID-19 pandemic through re-analysis of publicly available genomic data. Our resulting vertebrate viral alignment data is explorable via the Serratus Explorer and directly accessible on Amazon S3.

Contact:

Serratus is a collaborative open science project for ultra-rapid discovery of known and unknown coronaviruses in response to the COVID-19 pandemic through re-analysis of publicly available genomic data. Our resulting vertebrate viral alignment data is explorable via the Serratus Explorer and directly accessible on Amazon S3.

Update Frequency:

Quarterly

Managed By:

Serratus / UBC Cloud Innovation Centre

Resources:

1. resource:
   • Description: Versioned and structured data releases from the Serratus project. Current version is v210225.
   • ARN: arn:aws:s3:::lovelywater
   • Region: us-east-1
   • Type: S3 Bucket

Tags:

life sciences, genetic, genomic, bam, virus, COVID-19, SARS, SARS-CoV-2, MERS

Tools & Applications:

1. tools & applications:

   • Title: Serratus Explorer
   • URL: https://serratus.io/explorer
   • AuthorName: Serratus Team

2. tools & applications:

   • Title: Tantalus: An R Package for exploration of Serratus data
   • URL: https://github.com/serratus-bio/tantalus
   • AuthorName: Serratus Team

Publication:

1. publication:

   • Title: Petabase-scale sequence alignment catalyses viral discovery
   • URL: https://www.biorxiv.org/content/10.1101/2020.08.07.241729v2
   • AuthorName: Edgar R., Taylor J., Lin V., et al (2021)

2. publication:

   • Title: Ribovirus classification by a polymerase barcode sequence
   • URL: https://www.biorxiv.org/content/10.1101/2021.03.02.433648v1
   • AuthorName: Babaian A., and Edgar R. (2021)

3. publication:

   • Title: coronaSPAdes. From biosynthetic gene clusters to RNA viral assemblies
   • URL: https://www.biorxiv.org/content/10.1101/2020.07.28.224584v2
   • AuthorName: Meleshko D., Hajirasouliha I., and Korobeynikov A. (2021)

4. publication:

   • Title: Diversification of mammalian deltaviruses by host shifting
   • URL: https://www.pnas.org/content/118/3/e2019907118
   • AuthorName: Bergner L.M., Orton R.J., et al (2021)