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Research output: Contribution to Journal/Magazine › Journal article › peer-review
Research output: Contribution to Journal/Magazine › Journal article › peer-review
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TY - JOUR
T1 - Gene expression imputation across multiple brain regions provides insights into schizophrenia risk
AU - CommonMind Consortium
AU - Schizophrenia Working Group of the Psychiatric Genomics Consortium
AU - iPSYCH-GEMS Schizophrenia Working Group
AU - Huckins, Laura M
AU - Dobbyn, Amanda
AU - Ruderfer, Douglas M
AU - Hoffman, Gabriel
AU - Wang, Weiqing
AU - Pardiñas, Antonio F
AU - Rajagopal, Veera M
AU - Als, Thomas D
AU - T Nguyen, Hoang
AU - Girdhar, Kiran
AU - Boocock, James
AU - Roussos, Panos
AU - Fromer, Menachem
AU - Kramer, Robin
AU - Domenici, Enrico
AU - Gamazon, Eric R
AU - Purcell, Shaun
AU - Demontis, Ditte
AU - Børglum, Anders D
AU - Walters, James T R
AU - O'Donovan, Michael C
AU - Sullivan, Patrick
AU - Owen, Michael J
AU - Devlin, Bernie
AU - Sieberts, Solveig K
AU - Cox, Nancy J
AU - Im, Hae Kyung
AU - Sklar, Pamela
AU - Stahl, Eli A
AU - Knight, Jo
PY - 2019/4/1
Y1 - 2019/4/1
N2 - Transcriptomic imputation approaches combine eQTL reference panels with large-scale genotype data in order to test associations between disease and gene expression. These genic associations could elucidate signals in complex genome-wide association study (GWAS) loci and may disentangle the role of different tissues in disease development. We used the largest eQTL reference panel for the dorso-lateral prefrontal cortex (DLPFC) to create a set of gene expression predictors and demonstrate their utility. We applied DLPFC and 12 GTEx-brain predictors to 40,299 schizophrenia cases and 65,264 matched controls for a large transcriptomic imputation study of schizophrenia. We identified 413 genic associations across 13 brain regions. Stepwise conditioning identified 67 non-MHC genes, of which 14 did not fall within previous GWAS loci. We identified 36 significantly enriched pathways, including hexosaminidase-A deficiency, and multiple porphyric disorder pathways. We investigated developmental expression patterns among the 67 non-MHC genes and identified specific groups of pre- and postnatal expression.
AB - Transcriptomic imputation approaches combine eQTL reference panels with large-scale genotype data in order to test associations between disease and gene expression. These genic associations could elucidate signals in complex genome-wide association study (GWAS) loci and may disentangle the role of different tissues in disease development. We used the largest eQTL reference panel for the dorso-lateral prefrontal cortex (DLPFC) to create a set of gene expression predictors and demonstrate their utility. We applied DLPFC and 12 GTEx-brain predictors to 40,299 schizophrenia cases and 65,264 matched controls for a large transcriptomic imputation study of schizophrenia. We identified 413 genic associations across 13 brain regions. Stepwise conditioning identified 67 non-MHC genes, of which 14 did not fall within previous GWAS loci. We identified 36 significantly enriched pathways, including hexosaminidase-A deficiency, and multiple porphyric disorder pathways. We investigated developmental expression patterns among the 67 non-MHC genes and identified specific groups of pre- and postnatal expression.
KW - Brain/physiopathology
KW - Case-Control Studies
KW - Gene Expression/genetics
KW - Genetic Predisposition to Disease
KW - Genome-Wide Association Study/methods
KW - Genotype
KW - Humans
KW - Polymorphism, Single Nucleotide/genetics
KW - Quantitative Trait Loci/genetics
KW - Risk
KW - Schizophrenia/genetics
KW - Transcriptome/genetics
U2 - 10.1038/s41588-019-0364-4
DO - 10.1038/s41588-019-0364-4
M3 - Journal article
C2 - 30911161
VL - 51
SP - 659
EP - 674
JO - Nature Genetics
JF - Nature Genetics
SN - 1061-4036
IS - 4
ER -