[HTML][HTML] The technological landscape and applications of single-cell multi-omics

A Baysoy, Z Bai, R Satija, R Fan - Nature Reviews Molecular Cell …, 2023 - nature.com
Single-cell multi-omics technologies and methods characterize cell states and activities by
simultaneously integrating various single-modality omics methods that profile the …

[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 …

[HTML][HTML] Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches

M Guilliams, J Bonnardel, B Haest, B Vanderborght… - Cell, 2022 - cell.com
The liver is the largest solid organ in the body, yet it remains incompletely characterized.
Here we present a spatial proteogenomic atlas of the healthy and obese human and murine …

Single-cell atlases: shared and tissue-specific cell types across human organs

R Elmentaite, C Domínguez Conde, L Yang… - Nature Reviews …, 2022 - nature.com
The development of single-cell and spatial transcriptomics methods was instrumental in the
conception of the Human Cell Atlas initiative, which aims to generate an integrated map of …

[HTML][HTML] Precise identification of cell states altered in disease using healthy single-cell references

E Dann, AM Cujba, AJ Oliver, KB Meyer… - Nature Genetics, 2023 - nature.com
Joint analysis of single-cell genomics data from diseased tissues and a healthy reference
can reveal altered cell states. We investigate whether integrated collections of data from …

[HTML][HTML] Automatic cell-type harmonization and integration across Human Cell Atlas datasets

C Xu, M Prete, S Webb, L Jardine, BJ Stewart, R Hoo… - Cell, 2023 - cell.com
Harmonizing cell types across the single-cell community and assembling them into a
common framework is central to building a standardized Human Cell Atlas. Here, we present …

CancerSCEM: a database of single-cell expression map across various human cancers

J Zeng, Y Zhang, Y Shang, J Mai, S Shi… - Nucleic acids …, 2022 - academic.oup.com
With the proliferating studies of human cancers by single-cell RNA sequencing technique
(scRNA-seq), cellular heterogeneity, immune landscape and pathogenesis within diverse …

Single-cell analysis of shared signatures and transcriptional diversity during zebrafish development

A Sur, Y Wang, P Capar, G Margolin, MK Prochaska… - Developmental Cell, 2023 - cell.com
During development, animals generate distinct cell populations with specific identities,
functions, and morphologies. We mapped transcriptionally distinct populations across …

[HTML][HTML] A decade of molecular cell atlases

SR Quake - Trends in genetics, 2022 - cell.com
In recent years there has been tremendous progress towards deep molecular
characterization of cell types using single-cell transcriptome sequencing, creating so-called …