Chromatin accessibility profiling by ATAC-seq

FC Grandi, H Modi, L Kampman, MR Corces - Nature protocols, 2022 - nature.com
The assay for transposase-accessible chromatin using sequencing (ATAC-seq) provides a
simple and scalable way to detect the unique chromatin landscape associated with a cell …

Single-cell sequencing of brain cell transcriptomes and epigenomes

EJ Armand, J Li, F Xie, C Luo, EA Mukamel - Neuron, 2021 - cell.com
Single-cell sequencing technologies, including transcriptomic and epigenomic assays, are
transforming our understanding of the cellular building blocks of neural circuits. By directly …

Multi-omics single-cell data integration and regulatory inference with graph-linked embedding

ZJ Cao, G Gao - Nature Biotechnology, 2022 - nature.com
Despite the emergence of experimental methods for simultaneous measurement of multiple
omics modalities in single cells, most single-cell datasets include only one modality. A major …

Integrating de novo and inherited variants in 42,607 autism cases identifies mutations in new moderate-risk genes

X Zhou, P Feliciano, C Shu, T Wang, I Astrovskaya… - Nature …, 2022 - nature.com
To capture the full spectrum of genetic risk for autism, we performed a two-stage analysis of
rare de novo and inherited coding variants in 42,607 autism cases, including 35,130 new …

A multimodal cell census and atlas of the mammalian primary motor cortex

Principal manuscript editors, Analysis coordination… - Nature, 2021 - nature.com
Here we report the generation of a multimodal cell census and atlas of the mammalian
primary motor cortex as the initial product of the BRAIN Initiative Cell Census Network …

The enteric nervous system relays psychological stress to intestinal inflammation

KM Schneider, N Blank, Y Alvarez, K Thum… - Cell, 2023 - cell.com
Mental health profoundly impacts inflammatory responses in the body. This is particularly
apparent in inflammatory bowel disease (IBD), in which psychological stress is associated …

[HTML][HTML] Single-cell epigenomics reveals mechanisms of human cortical development

RS Ziffra, CN Kim, JM Ross, A Wilfert, TN Turner… - Nature, 2021 - nature.com
During mammalian development, differences in chromatin state coincide with cellular
differentiation and reflect changes in the gene regulatory landscape. In the developing brain …

Oligodendrocyte precursor cells ingest axons in the mouse neocortex

JA Buchanan, L Elabbady, F Collman… - Proceedings of the …, 2022 - National Acad Sciences
Neurons in the developing brain undergo extensive structural refinement as nascent circuits
adopt their mature form. This physical transformation of neurons is facilitated by the …

The human and mouse enteric nervous system at single-cell resolution

E Drokhlyansky, CS Smillie, N Van Wittenberghe… - Cell, 2020 - cell.com
The enteric nervous system (ENS) coordinates diverse functions in the intestine but has
eluded comprehensive molecular characterization because of the rarity and diversity of …

Gene regulatory networks controlling vertebrate retinal regeneration

T Hoang, J Wang, P Boyd, F Wang, C Santiago, L Jiang… - Science, 2020 - science.org
INTRODUCTION The ability to regenerate retinal neurons after injury varies drastically
among vertebrate species. Teleost fish such as zebrafish can regenerate all major retinal …