Author: Andrew E Jaffe

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Preprints

Flexible analysis of transcriptome assemblies with Ballgown

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recount: A large-scale resource of analysis-ready RNA-seq expression data

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Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex

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Human splicing diversity across the Sequence Read Archive

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Flexible expressed region analysis for RNA-seq with derfinder

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A Bayesian Framework for Multiple Trait Colocalization from Summary Association Statistics

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Polyester: simulating RNA-seq datasets with differential transcript expression

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Developmental And Genetic Regulation Of The Human Cortex Transcriptome In Schizophrenia

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Addressing confounding artifacts in reconstruction of gene co-expression networks

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Comprehensive assessment of multiple biases in small RNA sequencing reveals significant differences in the performance of widely used methods

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Characterizing the nuclear and cytoplasmic transcriptomes in developing and mature human cortex uncovers new insight into psychiatric disease gene regulation

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dotdotdot: an automated approach to quantify multiplex single molecule fluorescent in situ hybridization (smFISH) images in complex tissues

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Dissecting transcriptomic signatures of neuronal differentiation and maturation using iPSCs

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Defects of myelination are common pathophysiology in syndromic and idiopathic autism spectrum disorders

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The methylome of the human frontal cortex across development

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recount-brain: a curated repository of human brain RNA-seq datasets metadata

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Divergent neuronal DNA methylation patterns across human cortical development: Critical periods and a unique role of CpH methylation

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Placental gene expression mediates the interaction between obstetrical history and genetic risk for schizophrenia

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Regional heterogeneity in gene expression, regulation and coherence in hippocampus and dorsolateral prefrontal cortex across development and in schizophrenia

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Recounting the FANTOM Cage Associated Transcriptome

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Integrated DNA methylation and gene expression profiling across multiple brain regions implicate novel genes in Alzheimer's disease

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Identification and prioritization of gene sets associated with schizophrenia risk by co-expression network analysis in human brain

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Prefrontal co-expression of schizophrenia risk genes is associated with treatment response in patients

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Strategies for cellular deconvolution in human brain RNA sequencing data

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BDNF-TrkB signaling in oxytocin neurons contributes to maternal behavior

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Incomplete annotation of disease-associated genes is limiting our understanding of Mendelian and complex neurogenetic disorders

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regionReport: Interactive reports for region-based analyses

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Cell type-specific genetic regulation of expression in the granule cell layer of the human dentate gyrus

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Integrating brain methylome with GWAS for psychiatric risk gene discovery

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Molecularly-Defined Hippocampal Inputs Regulate Population Dynamics in the Prelimbic Cortex to Suppress Context Fear Memory Recall

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Developmental effects of maternal smoking during pregnancy on the human frontal cortex transcriptome

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Non-coding Class Switch Recombination-related transcription in human normal and pathological immune responses

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Strong Components of Epigenetic Memory in Cultured Human Fibroblasts Related to Site of Origin and Donor Age

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Association of a lincRNA postmortem with suicide by violent means and in vivo with aggressive phenotypes

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Characterizing the dynamic and functional DNA methylation landscape in the developing human cortex

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Genome-wide DNA methylation differences in nucleus accumbens of smokers vs. nonsmokers

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