Single-cell and spatial transcriptomics: deciphering brain complexity in health and disease

M Piwecka, N Rajewsky, A Rybak-Wolf - Nature Reviews Neurology, 2023 - nature.com
In the past decade, single-cell technologies have proliferated and improved from their
technically challenging beginnings to become common laboratory methods capable of …

[HTML][HTML] What is a cell type and how to define it?

H Zeng - Cell, 2022 - cell.com
Cell types are the basic functional units of an organism. Cell types exhibit diverse
phenotypic properties at multiple levels, making them challenging to define, categorize, and …

[HTML][HTML] A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain

Z Yao, CTJ van Velthoven, M Kunst, M Zhang… - Nature, 2023 - nature.com
The mammalian brain consists of millions to billions of cells that are organized into many cell
types with specific spatial distribution patterns and structural and functional properties …

Single-cell atlas reveals correlates of high cognitive function, dementia, and resilience to Alzheimer's disease pathology

H Mathys, Z Peng, CA Boix, MB Victor, N Leary, S Babu… - Cell, 2023 - cell.com
Alzheimer's disease (AD) is the most common cause of dementia worldwide, but the
molecular and cellular mechanisms underlying cognitive impairment remain poorly …

Molecularly defined and spatially resolved cell atlas of the whole mouse brain

M Zhang, X Pan, W Jung, AR Halpern, SW Eichhorn… - Nature, 2023 - nature.com
In mammalian brains, millions to billions of cells form complex interaction networks to enable
a wide range of functions. The enormous diversity and intricate organization of cells have …

Transcriptomic diversity of cell types across the adult human brain

K Siletti, R Hodge, A Mossi Albiach, KW Lee, SL Ding… - Science, 2023 - science.org
The human brain directs complex behaviors, ranging from fine motor skills to abstract
intelligence, but the diversity of cell types that support these skills has not been fully …

Maturation and circuit integration of transplanted human cortical organoids

O Revah, F Gore, KW Kelley, J Andersen, N Sakai… - Nature, 2022 - nature.com
Self-organizing neural organoids represent a promising in vitro platform with which to model
human development and disease,,,–. However, organoids lack the connectivity that exists in …

SCENIC+: single-cell multiomic inference of enhancers and gene regulatory networks

C Bravo González-Blas, S De Winter, G Hulselmans… - Nature …, 2023 - nature.com
Joint profiling of chromatin accessibility and gene expression in individual cells provides an
opportunity to decipher enhancer-driven gene regulatory networks (GRNs). Here we present …

Slide-tags enables single-nucleus barcoding for multimodal spatial genomics

AJC Russell, JA Weir, NM Nadaf, M Shabet, V Kumar… - Nature, 2024 - nature.com
Recent technological innovations have enabled the high-throughput quantification of gene
expression and epigenetic regulation within individual cells, transforming our understanding …

Dictionary learning for integrative, multimodal and scalable single-cell analysis

Y Hao, T Stuart, MH Kowalski, S Choudhary… - Nature …, 2024 - nature.com
Map** single-cell sequencing profiles to comprehensive reference datasets provides a
powerful alternative to unsupervised analysis. However, most reference datasets are …