We used the nine tissues with the largest sample size in the Genotype-Tissue Expression (GTEx) Pilot Project14 to test the gene prediction models generated in the DGN cohort. Tissue samples included subcutaneous adipose (n=115), tibial artery (n=122), left ventricle heart (n=88), lung (n=126), skeletal muscle (n=143), tibial nerve (n=98), skin from the sun-exposed portion of the lower leg (n=114), thyroid (n=112), and whole blood (n=162). In each tissue, normalized gene expression was adjusted for gender, the top 3 principal components (derived from genotype data), and the top 15 PEER factorsh.2p2csry (to quantify batch effects and experimental confounders)41 . We used GTEx to test the portability of predictors developed in whole blood (from the DGN cohort) across a wide variety of tissues.
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Tissue-Specific Gene Expression Analysis
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Adipose
Blood
Gene expression
Genotype
Heart
Left ventricle
Lower leg
Lung
Skeletal muscle
Skin
Thyroid
Tibial artery
Tibial nerve
Tissues
Corresponding Organization :
Other organizations : University of Chicago, Vanderbilt University
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Protocol cited in 46 other protocols
Variable analysis
independent variables
- Gene prediction models generated in the DGN cohort
- Normalized gene expression
- Gender
- The top 3 principal components (derived from genotype data)
- The top 15 PEER factors (to quantify batch effects and experimental confounders)
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