Publications | Computational Genomics of the Human Brain

Single-cell atlas of transcriptomic vulnerability across multiple neurodegenerative and neuropsychiatric diseases

Lee D^*, Koutrouli M^*, Masse NY^*, Hoffman GE^*, et al.

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Single-Nucleus Atlas of Cell-Type Specific Genetic Regulation in the Human Brain

Zeng B, et al., Hoffman GE^#, P Roussos

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Efficient differential expression analysis of large-scale single cell transcriptomics data using dreamlet

Hoffman GE, et al.

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Fast, flexible analysis of differences in cellular composition with crumblr

Hoffman GE, Roussos P

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Alzheimer’s disease transcriptional landscape in ex vivo human microglia

Kosoy R, et al., Hoffman GE^#, Roussos P^#

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Genetic regulation of cell type–specific chromatin accessibility shapes brain disease etiology

Zeng B^*, J Bendl^*, et al., JF Fullard^#, Hoffman GE^#, P Roussos^#

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Comment on: What genes are differentially expressed in individuals with schizophrenia? A systematic review

Hoffman GE^#, AE Jaffe^#, MJ Gandal^#, et al.

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Multi-ancestry eQTL meta-analysis of human brain identifies candidate causal variants for brain-related traits

Zeng B, Bendl J, Fullard JF, Hoffman GE^#, Roussos P^#

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Genetics of the human microglia regulome refines Alzheimer’s disease risk loci

Kosoy R^*, Fullard JF^*, Zeng B^*, Bendl J^*, et al., Hoffman GE^#, Roussos P^#

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Sex Differences in the Human Brain Transcriptome of Cases With Schizophrenia

Hoffman GE*, et al.

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Analysis framework and experimental design for evaluating synergy-driving gene expression

Schrode N, Seah C, Deans PJM, Hoffman GE^#, Brennand KJ^#

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dream: Powerful differential expression analysis for repeated measures designs

Hoffman GE, P Roussos

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decorate: Differential Epigenetic Coregulation Test

Hoffman GE, J Bendl, K Girdhar, P Roussos

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Functional Interpretation of Genetic Variants Using Deep Learning Predicts Impact on Epigenome

Hoffman GE, et al.

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CommonMind Consortium provides transcriptomic and epigenomic data for Schizophrenia and Bipolar Disorder

Hoffman GE, et al.

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New considerations for hiPSC-based models of neuropsychiatric disorders

Hoffman GE, et al.

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Cell-specific histone modification maps in the human frontal lobe link schizophrenia risk to the neuronal epigenome

Girdhar K*, Hoffman GE*, et al.

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Mapping regulatory variants in hiPSC models

Hoffman GE, KJ Brennand

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Transcriptional signatures of schizophrenia in hiPSC-derived NPCs and neurons are concordant with signatures from post mortem adult brains

Hoffman GE, et al.

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Analysis of Transcriptional Variability in a Large Human iPSC Library Reveals Genetic and Non-genetic Determinants of Heterogeneity

Carcamo-Orive I*, GE Hoffman*, P Cundiff*, ND Beckmann*, et al.

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variancePartition: interpreting drivers of variation in complex gene expression studies

Hoffman GE, EE Schadt

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lrgpr: interactive linear mixed model analysis of genome-wide association studies with composite hypothesis testing and regression diagnostics in R

Hoffman GE, JG Mezey, EE Schadt

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Correcting for Population Structure and Kinship Using the Linear Mixed Model: Theory and Extensions

Hoffman GE

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PUMA: A Unified Framework for Penalized Multiple Regression Analysis of GWAS Data

Hoffman GE, BA Logsdon, JG Mezey

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