Published October 14, 2024 | Version v1
Dataset Open

RNA phenotypes, xQTLs, xTWAS weights, and xTWAS results for Geuvadis and GTEx using Pantry

  • 1. ROR icon University of California, San Diego
  • 2. ROR icon Seattle Children's Hospital
  • 3. ROR icon Scripps Research Institute
  • 4. ROR icon Dana-Farber Cancer Institute
  • 5. ROR icon Harvard Medical School
  • 6. ROR icon University of Washington

Description

This repository contains RNA phenotyping genetic analysis results for 55 human tissue datasets using Pantry.  It includes RNA phenotypes, covariates, cis-QTL results from tensorQTL, and weights and associations for multimodal transcriptome-wide association study (xTWAS) results using FUSION, for six RNA modalities, for Geuvadis and 54 GTEx tissues. The xTWAS data covers 114 traits using GWAS data from Publicly available GWAS summary statistics, harmonized and imputed to GTEx v8' variant reference. For more information, see the publication "Multimodal analysis of RNA sequencing data powers discovery of complex trait genetics".

Files

README.md

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Additional details

Related works

Is source of
Preprint: 10.1101/2024.05.14.594051 (DOI)
Software: 10.5281/zenodo.13922024 (DOI)

Funding

National Institute of General Medical Sciences
Haplotype-aware models of gene and isoform expression with application to genetic studies of disease in diverse populations R01GM140287
National Institute on Drug Abuse
Center for Genetic Studies of Drug Abuse in Outbred Rats P50DA037844

Software

Repository URL
https://github.com/PejLab/Pantry
Programming language
Snakemake, Python, R