EGA0090GenomicsJulian Knighthttps://ega-archive.org/dacs/EGAC01000000009EGAEGA DAC EGAC01000000009EGAjulian@well.ox.ac.ukExpression quantitative trait loci (eQTL) mapping is a widely used tool to study the genetics of gene expression. Confounding factors and the burden of multiple testing limit the ability to map distal trans eQTLs, which is important to understand downstream genetic effects on genes and pathways. We propose a two-stage linear mixed model that first learns local directed gene-regulatory networks to then condition on the expression levels of selected genes. We show that this covariate selection approach controls for confounding factors and regulatory context, thereby increasing eQTL detection power and improving the consistency between studies. GNet-LMM is available at: https://github.com/PMBio/GNetLMM.Modelling local gene networks increases power to detect trans-acting genetic effects on gene expression.Rakitsch Barbara B, Stegle Oliver Odata.Networks, Transcriptional, Gene., Regulatory Network, Circuits, Modules, Gene Regulatory, Gene Circuit, Gene Expressions, Gene Module, familial, Gene, Network, Expressions, Gene Circuits, genetic, Gene Modules, Regulatory Networks, Circuit, Gene Networks, Gene Network, Transcriptional Networks, Transcriptional Network, Gene Regulatory Network, inherited genetic, Expression, constitutitional genetic, hereditary, ModuleGene, Expression, human being, Gene Expressions, Expressions, man, data., heredity, human, Cellwell-differentiated neuroendocrine tumors of the stomach, MUTYH-related attenuated familial adenomatous polyposis, type 2, other disease, Materials, MUTYH-Associated Polyposis, methionine aminopeptidase activity, selection process, developmental stage, MYH-associated polyposis, familial, disorders, autosomal recessive familial adenomatous polyposis, Maps, Gene, Trait Loci, medical condition, gastric NET, Quantitative, Cistrons, gastric well differentiated endocrine tumor/carcinoma, SKLMM, Quantitative Trait, diseases, gastric NET G1/2, heredity, Quantitative Trait Locus, MUTYH-related attenuated FAP, disease or disorder, 2, Genetic Materials, condition, diseases and disorders, familial adenomatous polyposis, Genetic Material, MAP, peptidase M activity, autosomal recessive, adenomas, MUTYH-associated polyposis, study, MUTYH-related AFAP, RUTBC3, rabGAPLP, lentigo maligna melanoma, L-methionine aminopeptidase activity, human disease, Gene Expressions, Genetic, familial adenomatous polyposis 2, Hutchison melanotic freckle, RabGAP-5, Trait Locus, INSDC_feature:gene, MYH-Associated Polyposis, Expressions, Locus, gastric neuroendocrine tumor, RABGAP5, autosomal recessive multiple colorectal adenomas, genetic, non-neoplastic, LMM., disease, Material, RUSC3, Loci, multiple colorectal, gastric well differentiated endocrine tumor, disorder, malignant lentigo melanoma, MAP syndrome, MUTYH-related attenuated familial polyposis coli, distal, Cistron, Homo sapiens disease, inherited genetic, stage, Expression, Quantitative Trait Loci Genes, firmness, GNET, constitutitional genetic, hereditary, FAP2, colorectal adenomatous polyposis9falseGenetics of gene expression in primary human immune cells Data Access CommitteeData Access Committee EGAC01000000009EGAC01000000009960626911988EGAS00001006945EGAS00001005046EGAS00001006233EGAS00001005102EGAS00000000109EGAD00001007048EGAD00010002475EGAD00001007042EGAD00001007020EGAD00001007761EGAD00001007047EGAD00001007049EGAD00001008758EGAD00001006979EGAD00001007050EGAD00001007046EGAD00001007043EGAD00010002476EGAD00001007045EGAD00001007044EGAD00010000144EGAD00010000520