Carolyn O’Connor

Human Body Single-Cell Atlas of 3D Genome Organization and DNA Methylation

The paper maps 3D genome organization and DNA methylation across 86,689 single nuclei from 16 human tissues, revealing cell-type-specific variations and discrepancies between methylation and chromatin structure.

A Multimodal Single-Cell Epigenomic and 3D Genome Atlas of the Human Basal Ganglia

This paper creates a multimodal single-cell atlas of the human basal ganglia, revealing epigenomic and 3D genome features across cell types and linking them to disease-associated genetic risk.

Transient cell states encode positional information to direct asymmetric growth

The paper shows transient cell states in plants encode positional information to direct asymmetric growth through gene regulatory networks and hormonal signaling.

Single-cell Multiome Analysis of Chromatin State and Transcriptome in the Human Basal Ganglia

This paper presents a single-cell multiome atlas of the human basal ganglia, linking chromatin states and transcriptomes to cell-type identity and disease-associated variants.

Single-Cell Atlas of Transcription and Chromatin States Reveals Regulatory Programs in the Human Brain

The paper creates a single-cell atlas of transcription and chromatin states in the human brain, identifying regulatory programs and linking them to neuropsychiatric disorders.

Brain Region-Specific Epigenomic Reorganization and Altered Cell States in Alzheimer's Disease

This study presents a single-cell multi-omic atlas of Alzheimer's disease brain regions, revealing region-specific epigenomic changes and altered cell states.

CRISPR-Cas9 Screening Reveals Microproteins Regulating Adipocyte Proliferation and Lipid Metabolism

This study uses CRISPR-Cas9 screening to identify microproteins regulating adipocyte proliferation and lipid metabolism in mice, revealing a novel mouse-specific microprotein involved in adipocyte differentiation.

The inactive X chromosome drives sex differences in microglial inflammatory activity in human glioblastoma

The paper identifies sex differences in microglial inflammatory responses in glioblastoma, showing that genes on the inactive X chromosome drive these differences.

Cell type-specific effects of age and sex on human cortical neurons

The paper examines age and sex effects on human cortical neurons using multiomic data, finding age-related changes in gene expression and DNA methylation, and sex differences in gene expression and X-inactivation escape.

Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain

The paper generates a single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain, identifying methylation patterns and regulatory networks across cell types and brain regions.

Epigenome erosion in Alzheimer's disease brain cells and induced neurons

This study identifies AD-specific DNA methylation signatures and chromosomal epigenome erosion in LOAD brain cells and shows their conservation in induced neurons.

Brain-wide Correspondence Between Neuronal Epigenomics and Long-Distance Projections

The paper links single-cell epigenomes and projection patterns of 33,034 mouse neurons to identify transcriptomic and epigenomic properties of projection cell types.

Deletion mapping of regulatory elements for GATA3 reveals a distal T helper 2 cell enhancer involved in allergic diseases

The paper identifies a distal enhancer for GATA3 involved in allergic diseases by combining GWAS signals with deletion mapping in T helper 2 cells.

Epigenomic complexity of the human brain revealed by single-cell DNA methylomes and 3D genome structures

The paper identifies 188 cell types in the human brain using single-cell DNA methylation and 3D genome data, and develops a tool to predict cell types based on methylation patterns.

DNA Methylation Atlas of the Mouse Brain at Single-Cell Resolution

The paper constructs a DNA methylation atlas of the mouse brain at single-cell resolution, revealing epigenetic diversity and spatial organization of neuronal subtypes.

Epigenomic Diversity of Cortical Projection Neurons in the Mouse Brain

The paper links epigenomic properties of cortical projection neurons to their anatomical and projection patterns using single-nucleus DNA methylation sequencing in mice.

Gene regulatory networks underlying human microglia maturation

This study defines age-specific brain environmental factors driving microglia phenotypes through transcriptomic and epigenomic analysis of human fetal and postnatal microglia.

Cell type-specific enhancer-promoter connectivity maps in the human brain and disease risk association

The paper identifies cell type-specific enhancer-promoter connectivity in the human brain and links these to disease risk variants in Alzheimer's and psychiatric disorders.

Single-cell multi-omic profiling of chromatin conformation and DNA methylome

The paper develops sn-m3C-seq to profile chromatin conformation and DNA methylation in single nuclei, enabling high-resolution cell-type classification and chromatin map reconstruction in mice.

Robust single-cell DNA methylome profiling with snmC-seq2

This paper introduces snmC-seq2, an improved single-cell DNA methylome profiling method that enhances read mapping, reduces artifacts, and increases throughput and coverage uniformity.