2024
Critical reasoning on the co-expression module QTL in the dorsolateral prefrontal cortex
Cote A, Young H, Huckins L. Critical reasoning on the co-expression module QTL in the dorsolateral prefrontal cortex. Human Genetics And Genomics Advances 2024, 5: 100311. PMID: 38773772, PMCID: PMC11214266, DOI: 10.1016/j.xhgg.2024.100311.Peer-Reviewed Original ResearchConceptsExpression quantitative trait lociGene co-expressionCo-expressionExpression quantitative trait locus methodGenetic variantsComplex trait heritabilityMultiple testing burdenGene-based testsQuantitative trait lociTrans-eQTLsCis-eQTLsRegulatory variationSequencing datasetsTrait lociGene regulationTrait heritabilityGene functionGene modulesReal-data applicationModule genesGenesTesting burdenDorsolateral prefrontal cortexVariantsComparison to prior studies
2022
Comparison of confound adjustment methods in the construction of gene co-expression networks
Cote AC, Young HE, Huckins LM. Comparison of confound adjustment methods in the construction of gene co-expression networks. Genome Biology 2022, 23: 44. PMID: 35115012, PMCID: PMC8812044, DOI: 10.1186/s13059-022-02606-0.Peer-Reviewed Original Research
2020
Analysis of Genetically Regulated Gene Expression Identifies a Prefrontal PTSD Gene, SNRNP35, Specific to Military Cohorts
Huckins L, Chatzinakos C, Breen M, Hartmann J, Klengel T, da Silva Almeida A, Dobbyn A, Girdhar K, Hoffman G, Klengel C, Logue M, Lori A, Maihofer A, Morrison F, Nguyen H, Park Y, Ruderfer D, Sloofman L, van Rooij S, Consortium P, Baker D, Chen C, Cox N, Duncan L, Geyer M, Glatt S, Im H, Risbrough V, Smoller J, Stein D, Yehuda R, Liberzon I, Koenen K, Jovanovic T, Kellis M, Miller M, Bacanu S, Nievergelt C, Buxbaum J, Sklar P, Ressler K, Stahl E, Daskalakis N. Analysis of Genetically Regulated Gene Expression Identifies a Prefrontal PTSD Gene, SNRNP35, Specific to Military Cohorts. Cell Reports 2020, 31: 107716. PMID: 32492425, PMCID: PMC7359754, DOI: 10.1016/j.celrep.2020.107716.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsCase-Control StudiesCohort StudiesDexamethasoneDown-RegulationGene Expression RegulationGene Regulatory NetworksGenetic Predisposition to DiseaseHumansLeukocytesMaleMiceMice, Inbred C57BLMilitary PersonnelPrefrontal CortexRepressor ProteinsRibonucleoproteins, Small NuclearRNA InterferenceRNA, Small InterferingStress Disorders, Post-TraumaticConceptsPost-traumatic stress disorderGenetically regulated gene expressionPost-traumatic stress disorder casesDorsolateral prefrontal cortexGene expressionU12 intron splicingPrefrontal cortexStress disorderDeployment stressTranscriptome imputationTissue-specific gene expressionDifferential gene expressionMilitary cohortZNF140U12 intronsGenetic heterogeneityExpression changesFunctional roleExogenous glucocorticoidsPeripheral leukocytesEuropean cohortCortexCohortDisordersExpression