A5049753900- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- Single-cell and spatial transcriptomics
- RNA Research and Splicing
- Muscle Physiology and Disorders
- Neuroinflammation and Neurodegeneration Mechanisms
- Genetics and Physical Performance
- HIV Research and Treatment
- Developmental Biology and Gene Regulation
- RNA and protein synthesis mechanisms
- Molecular Biology Techniques and Applications
University of California, Irvine
2023-2025
Salk Institute for Biological Studies
2020-2025
Abstract Mammalian brain cells show remarkable diversity in gene expression, anatomy and function, yet the regulatory DNA landscape underlying this extensive heterogeneity is poorly understood. Here we carry out a comprehensive assessment of epigenomes mouse cell types by applying single-nucleus methylation sequencing 1,2 to profile 103,982 nuclei (including 95,815 neurons 8,167 non-neuronal cells) from 45 regions cortex, hippocampus, striatum, pallidum olfactory areas. We identified 161...
While most mammalian enhancers regulate their cognate promoters over moderate distances of tens kilobases (kb), some act in the megabase range. The sequence features enabling such extreme-distance enhancer-promoter interactions remain elusive. Here, we used
Abstract Higher-order chromatin structure and DNA methylation are critical for gene regulation, but how these vary across the human body remains unclear. We performed multi-omic profiling of 3D genome 86,689 single nuclei 16 tissues, identifying 35 major 206 cell subtypes. revealed extensive changes in CG non-CG almost all types characterized at an unprecedented cellular resolution. Intriguingly, discrepancies exist between delineated by structure, indicating that role distinct epigenomic...
Summary Mammalian brain cells are remarkably diverse in gene expression, anatomy, and function, yet the regulatory DNA landscape underlying this extensive heterogeneity is poorly understood. We carried out a comprehensive assessment of epigenomes mouse cell types by applying single nucleus methylation sequencing to profile 110,294 nuclei from 45 regions cortex, hippocampus, striatum, pallidum, olfactory areas. identified 161 clusters with distinct spatial locations projection targets....
It is unclear how the activation of HIV-1 transcription affects chromatin structure. We interrogated organization both genome-wide and nearby integration sites using Hi-C ATAC-seq. In conjunction, we analyzed genome neighboring genes. found that long-range contacts did not differ significantly between uninfected cells those harboring an integrated genome, whether was actively transcribed or inactive. Instead, changes accessibility immediately downstream provirus, demonstrating can alter...