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 …

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 …

[HTML][HTML] Spatial epigenome–transcriptome co-profiling of mammalian tissues

D Zhang, Y Deng, P Kukanja, E Agirre, M Bartosovic… - Nature, 2023 - nature.com
Emerging spatial technologies, including spatial transcriptomics and spatial epigenomics,
are becoming powerful tools for profiling of cellular states in the tissue context,,,–. However …

[HTML][HTML] Molecular and spatial signatures of mouse brain aging at single-cell resolution

WE Allen, TR Blosser, ZA Sullivan, C Dulac, X Zhuang - Cell, 2023 - cell.com
The diversity and complex organization of cells in the brain have hindered systematic
characterization of age-related changes in its cellular and molecular architecture, limiting …

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 …

[HTML][HTML] Integrated multimodal cell atlas of Alzheimer's disease

MI Gabitto, KJ Travaglini, VM Rachleff, ES Kaplan… - Nature …, 2024 - nature.com
Alzheimer's disease (AD) is the leading cause of dementia in older adults. Although AD
progression is characterized by stereotyped accumulation of proteinopathies, the affected …

Benchmarking spatial and single-cell transcriptomics integration methods for transcript distribution prediction and cell type deconvolution

B Li, W Zhang, C Guo, H Xu, L Li, M Fang, Y Hu… - Nature …, 2022 - nature.com
Spatial transcriptomics approaches have substantially advanced our capacity to detect the
spatial distribution of RNA transcripts in tissues, yet it remains challenging to characterize …