Published July 2, 2020 | Version v1
Dataset Open

Extended data: Impact of admixture and ancestry on eQTL analysis and GWAS colocalization in GTEx

Authors/Creators

  • 1. Department of Genetics, Stanford University
  • 2. Biomedical Informatics, Stanford University
  • 3. Department of Biomathematics, University of California, Los Angeles
  • 4. Department of Genetics, University of Pennsylvania; Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania
  • 5. Analytic and Translational Genetics Unit, Massachusetts General Hospital; Stanley Center for Psychiatric Research, Broad Institute
  • 6. Department of Bioengineering, Stanford University
  • 7. The Broad Institute of MIT and Harvard
  • 8. Section of Genetic Medicine, Department of Medicine, The University of Chicago
  • 9. Department of Epidemiology, Harvard T.H. Chan School of Public Health; The Broad Institute of MIT and Harvard
  • 10. Department of Genetics, University of Pennsylvania
  • 11. Department of Biostatistics, University of Michigan
  • 12. Department of Pathology, Stanford University; Department of Genetics, Stanford University

Description

eQTL summary statistics and GWAS colocalization posterior probabilities from eQTL calling in an admixed subcohort of GTEx v8 with local and global ancestry adjustments. For the original, non-peer-reviewed preprint, see https://www.biorxiv.org/content/10.1101/836825v1. 

For the related source code, see https://doi.org/10.5281/zenodo.3924788 or https://github.com/nicolerg/gtex-admixture-la. 

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Additional details

References

  • Nicole R. Gay, Michael Gloudemans, Margaret L. Antonio, Brunilda Balliu, YoSon Park, Alicia R. Martin, Shaila Musharoff, Abhiram Rao, François Aguet, Alvaro Barbeira, Rodrigo Bonazzola, Farhad Hormozdiari, GTEx Consortium, Kristin G. Ardlie, Christopher D. Brown, Hae Kyung Im, Tuuli Lappalainen, Xiaoquan Wen, Stephen B. Montgomery. Impact of admixture and ancestry on eQTL analysis and GWAS colocalization in GTEx. Preprint at https://www.biorxiv.org/content/10.1101/836825v1 (2019). doi: https://doi.org/10.1101/836825
  • François Aguet, Alvaro N Barbeira, Rodrigo Bonazzola, Andrew Brown, Stephane E Castel, Brian Jo, Silva Kasela, Sarah Kim-Hellmuth, Yanyu Liang, Meritxell Oliva, Princy E Parsana, Elise Flynn, Laure Fresard, Eric R Gaamzon, Andrew R Hamel, Yuan He, Farhad Hormozdiari, Pejman Mohammadi, Manuel Muñoz-Aguirre, YoSon Park, Ashis Saha, Ayellet V Segrć, Benjamin J Strober, Xiaoquan Wen, Valentin Wucher, Sayantan Das, Diego Garrido-Martín, Nicole R Gay, Robert E Handsaker, Paul J Hoffman, Seva Kashin, Alan Kwong, Xiao Li, Daniel MacArthur, John M Rouhana, Matthew Stephens, Ellen Todres, Ana Viñuela, Gao Wang, Yuxin Zou, The GTEx Consortium, Christopher D Brown, Nancy Cox, Emmanouil Dermitzakis, Barbara E Engelhardt, Gad Getz, Roderic Guigo, Stephen B Montgomery, Barbara E Stranger, Hae Kyung Im, Alexis Battle, Kristin G Ardlie, Tuuli Lappalainen. The GTEx Consortium atlas of genetic regulatory effects across human tissues. Preprint at https://www.biorxiv.org/content/10.1101/787903v1. doi: https://doi.org/10.1101/787903