Joint single-cell profiling resolves 5mC and 5hmC and reveals their distinct gene regulatory effects
Abstract Oxidative modification of 5-methylcytosine (5mC) by ten-eleven translocation (TET)
DNA dioxygenases generates 5-hydroxymethylcytosine (5hmC), the most abundant form of …
DNA dioxygenases generates 5-hydroxymethylcytosine (5hmC), the most abundant form of …
Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes
Chromatin features are widely used for genome-scale map** of enhancers. However,
discriminating active enhancers from other cis-regulatory elements, predicting enhancer …
discriminating active enhancers from other cis-regulatory elements, predicting enhancer …
Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes
MNK Choudhary, K Quaid, X **ng, H Schmidt… - Nature …, 2023 - nature.com
Transposable elements (TEs) are major contributors of genetic material in mammalian
genomes. These often include binding sites for architectural proteins, including the …
genomes. These often include binding sites for architectural proteins, including the …
DNA methylation dynamics and dysregulation delineated by high-throughput profiling in the mouse
We have developed a mouse DNA methylation array that contains 296,070 probes
representing the diversity of mouse DNA methylation biology. We present a mouse …
representing the diversity of mouse DNA methylation biology. We present a mouse …
[HTML][HTML] Mechanistic drivers of chromatin organization into compartments
HL Harris, MJ Rowley - Current Opinion in Genetics & Development, 2024 - Elsevier
Highlights•Recent work indicates that chromatin compartments can finely segregate
genomic intervals that are 1–2 kb in size.•Evidence both supports and refutes several …
genomic intervals that are 1–2 kb in size.•Evidence both supports and refutes several …
A multiomic atlas of the aging hippocampus reveals molecular changes in response to environmental enrichment
RF Pérez, P Tezanos, A Peñarroya… - Nature …, 2024 - nature.com
Aging involves the deterioration of organismal function, leading to the emergence of multiple
pathologies. Environmental stimuli, including lifestyle, can influence the trajectory of this …
pathologies. Environmental stimuli, including lifestyle, can influence the trajectory of this …
Comparative Genomics and Epigenomics of Transcriptional Regulation
Transcriptional regulation in response to diverse physiological cues involves complicated
biological processes. Recent initiatives that leverage whole genome sequencing and …
biological processes. Recent initiatives that leverage whole genome sequencing and …
Placenta and fetal brain share a neurodevelopmental disorder DNA methylation profile in a mouse model of prenatal PCB exposure
Polychlorinated biphenyls (PCBs) are developmental neurotoxicants implicated as
environmental risk factors for neurodevelopmental disorders (NDDs). Here, we report the …
environmental risk factors for neurodevelopmental disorders (NDDs). Here, we report the …
Low-input and single-cell methods for Infinium DNA methylation BeadChips
Abstract The Infinium BeadChip is the most widely used DNA methylome assay technology
for population-scale epigenome profiling. However, the standard workflow requires over 200 …
for population-scale epigenome profiling. However, the standard workflow requires over 200 …
Comparative epigenome analysis using Infinium DNA methylation BeadChips
The arrival of the Infinium DNA methylation BeadChips for mice and other nonhuman
mammalian species has outpaced the development of the informatics that supports their use …
mammalian species has outpaced the development of the informatics that supports their use …