Sold by: Amazon Web Services
Open data
|
Deployed on AWS
To facilitate benchmarking and development, the Google Brain group has sequenced 9 human samples covering the Genome in a Bottle truth sets on different sequencing instruments, sequencing modalities (Illumina short read and Pacific BioSciences long read), sample preparation protocols, and for whole genome and whole exome capture. The original source of these data are [gs://google-brain-genomics-public](https://console.cloud.google.com/storage/browser/brain-genomics-public/research/sequencing;tab=objects?prefix=&forceOnObjectsSortingFiltering=false).
Overview
To facilitate benchmarking and development, the Google Brain group has sequenced 9 human samples covering the Genome in a Bottle truth sets on different sequencing instruments, sequencing modalities (Illumina short read and Pacific BioSciences long read), sample preparation protocols, and for whole genome and whole exome capture. The original source of these data are [gs://google-brain-genomics-public](https://console.cloud.google.com/storage/browser/brain-genomics-public/research/sequencing ;tab=objects?prefix=&forceOnObjectsSortingFiltering=false).
Features and programs
Open Data Sponsorship Program
This dataset is part of the Open Data Sponsorship Program, an AWS program that covers the cost of storage for publicly available high-value cloud-optimized datasets.
Pricing
This is a publicly available data set. No subscription is required.
Legal
Content disclaimer
Vendors are responsible for their product descriptions and other product content. AWS does not warrant that vendors' product descriptions or other product content are accurate, complete, reliable, current, or error-free.
Delivery details
AWS Data Exchange (ADX)
AWS Data Exchange is a service that helps AWS easily share and manage data entitlements from other organizations at scale.
Open data resources
Available with or without an AWS account.
- How to use
- To access these resources, reference the Amazon Resource Name (ARN) using the AWS Command Line Interface (CLI). Learn more
- Description
- FASTQ files for nine human samples comprising three parent-child trios at 40X 30X, and 20X coverage for whole genome sequencing and 100X, 75X, and 50X coverage for whole exome sequencing. Four samples are also sequenced with PacBio HiFi as described in Baid et al 2020. Note that this S3 bucket only contains FASTQ files; BAM and VCF files are available at [gs://google-brain-genomics-public](https://console.cloud.google.com/storage/browser/brain-genomics-public/research/sequencing;tab=objects?prefix=&forceOnObjectsSortingFiltering=false).
- Resource type
- S3 bucket
- Amazon Resource Name (ARN)
- arn:aws:s3:::genomics-benchmark-datasets/google-brain
- AWS region
- us-east-1
- AWS CLI access (No AWS account required)
- aws s3 ls --no-sign-request s3://genomics-benchmark-datasets/google-brain/
Resources
Vendor resources
Support
Managed By
Amazon Web Services
How to cite
Google Brain Genomics Sequencing Dataset for Benchmarking and Development was accessed on DATE from https://registry.opendata.aws/google-brain-genomics-public .
License
Similar products
The ont-open-data registry provides reference sequencing data from Oxford Nanopore Technologies to support, 1) Exploration of the characteristics of nanopore sequence data. 2) Assessment and reproduction of performance benchmarks 3) Development of tools and methods. The data deposited showcases DNA sequences from a representative subset of sequencing chemistries. The datasets correspond to publicly-available reference samples (e.g. Genome In A Bottle reference cell lines). Raw data are provided with metadata and scripts to describe sample and data provenance.
The Somatic Mosaicism across Human Tissues (SMaHT) project is an NIH Common
Fund consortium (2023-) aimed to comprehensively characterize somatic variation
("mosaicism") in normal human tissues. While most genetic studies have relied
on blood-derived DNA, SMaHT captures the full spectrum of DNA variation across
cell types, tissues, and organs from phenotypically normal individuals to
better understand the role of somatic mosaicism in human development, aging,
and disease progression.
Researchers in the consortium develop and apply experimental and computational
methods, paired with the state-of-the-art sequencing technologies, to accurately
detect even rare mutations (frequency < 1%) in subpopulations of cells. In
addition to generating the production data across ~20 tissue types from 150
post-mortem donors, SMaHT also produces datasets from cell line and tissue
homogenate samples, to benchmark and develop new technologies and computational
tools for mosaic variant detection.
Th[...]
Description
Overivew
This dataset contains alignment files and small variant (includes single nucleotide variants (SNV) and indels), copy number variant (CNV), short tandem repeat (i.e., repeat expansion; STR), structural variant (SV) and other variant call files from the 1000 Genomes Project (1KGP) Phase 3 dataset (3,202 individuals, 602 trios) using Illumina DRAGEN v3.5.7b, v3.7.6, v4.0.3, v4.2.7, and v4.4.7 software.
All DRAGEN analyses were performed in the cloud using the Illumina Connected Analytics bioinformatics platform powered by Amazon Web Services (see 'Data solution empowering population genomics' for more information).
The v3.7.6, v4.2.7, and v4.4.7 datasets include results from trio small variant, de novo s[...]
Easily connect to Google BigQuery from AWS Glue
Easily connect to Google Cloud Storage from AWS Glue
This product has a fee associated with the provision and deployment of the application and AMI support. Plausible is a simple and privacy-friendly Google Analytics alternative.
This is Windows Server 2022 Base with Containers repackaged with Google Chrome and VSCode to quickly get you started with the Web and Productivity. Launch your Windows Server today and enjoy the new stable Operating System from Microsoft.
This is Windows Server 2022 repackaged with Google Chrome and VSCode to quickly get you started with the Web and Productivity. Launch your Windows Server today and enjoy the new stable Operating System from Microsoft.