**Release notes:** Update on August 10, 2023: on August 10, 2023, the following directory was moved to here from workspace AnVIL_GTEx_V8_hg38: AnVIL_GTEx_V8_hg38/gtex_histology_svs_files/

This workspace is an archive of GTEx public data. The primary location for the GTEx public data is on the [GTEx Portal](https://gtexportal.org). Descriptions of the public data files can be found [here](https://gtexportal.org/home/datasets)

Please note that this workspace only contains GTEx public data. Access to GTEx protected data requires dbGaP approval, as described [here](https://gtexportal.org/home/protectedDataAccess). 

The following data are available in the workspace-associated bucket:

* [GTEx V8 public data ](https://console.cloud.google.com/storage/browser/fc-ed391d18-3c0a-4499-a292-35ca51ebf381/gtex_analysis_v8?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&prefix=&forceOnObjectsSortingFiltering=false)
* [GTEx v9 public data](https://console.cloud.google.com/storage/browser/fc-ed391d18-3c0a-4499-a292-35ca51ebf381/gtex_analysis_v9?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&prefix=&forceOnObjectsSortingFiltering=false). Please note that V9 does not include new RNA-seq or QTL data.
* [eGTEx data](https://console.cloud.google.com/storage/browser/fc-ed391d18-3c0a-4499-a292-35ca51ebf381/gtex_egtex?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&prefix=&forceOnObjectsSortingFiltering=false)
* [Additional datasets](https://console.cloud.google.com/storage/browser/fc-ed391d18-3c0a-4499-a292-35ca51ebf381/gtex_additional_datasets?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&prefix=&forceOnObjectsSortingFiltering=false)
* [External datasets](https://console.cloud.google.com/storage/browser/fc-ed391d18-3c0a-4499-a292-35ca51ebf381/gtex_external_datasets?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&prefix=&forceOnObjectsSortingFiltering=false)
* [Histology images](https://console.cloud.google.com/storage/browser/fc-ed391d18-3c0a-4499-a292-35ca51ebf381/gtex_histology_svs_files;tab=objects?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&prefix=&forceOnObjectsSortingFiltering=false) in [Aperio SVS format](https://openslide.org/formats/aperio/) 

The following participant-level annotations are provided in the GTEx V8 public data:
* Sex
* Age-bracket, in 10-year intervals
* Hardy Scale death classification.

Protected data available in other workspaces (with an approved dbGaP application) include:

* BAM files for RNA-Seq, Whole Exome Seq, and Whole Genome Seq
* Genotype Calls (.vcf) for OMNI SNP Arrays, WES, and WGS
* OMNI SNP Array Intensity files (.idat and .gtc)
* Affymetrix Expression Array intensity files (.cel)
* Allele Specific Expression (ASE) tables
* All expression matrices from the Portal, including samples that did not pass the Analysis Freeze QC
* Sample Attributes
* Subject Phenotypes

For documentation on analysis and data production pipelines, please see the [documentation on the GTEx Portal](https://gtexportal.org/home/documentationPage) and [https://github.com/broadinstitute/gtex-pipeline](https://github.com/broadinstitute/gtex-pipeline). For questions about the data, please consult the [FAQs](https://gtexportal.org/home/faq), or submit new questions [here](https://gtexportal.org/home/contact).
 Platform: AnVIL

ANVIL_GTEx_public_data

Description

Dataset Details