Methods and applications for single-cell and spatial multi-omics

K Vandereyken, A Sifrim, B Thienpont… - Nature Reviews Genetics, 2023 - nature.com
The joint analysis of the genome, epigenome, transcriptome, proteome and/or metabolome
from single cells is transforming our understanding of cell biology in health and disease. In …

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 …

The emerging landscape of spatial profiling technologies

JR Moffitt, E Lundberg, H Heyn - Nature Reviews Genetics, 2022 - nature.com
Improved scale, multiplexing and resolution are establishing spatial nucleic acid and protein
profiling methods as a major pillar for cellular atlas building of complex samples, from …

Characterizing cis-regulatory elements using single-cell epigenomics

S Preissl, KJ Gaulton, B Ren - Nature Reviews Genetics, 2023 - nature.com
Cell type-specific gene expression patterns and dynamics during development or in disease
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …

Vascular endothelial cell development and diversity

E Trimm, K Red-Horse - Nature Reviews Cardiology, 2023 - nature.com
Vascular endothelial cells form the inner layer of blood vessels where they have a key role
in the development and maintenance of the functional circulatory system and provide …

[HTML][HTML] Cross-tissue human fibroblast atlas reveals myofibroblast subtypes with distinct roles in immune modulation

Y Gao, J Li, W Cheng, T Diao, H Liu, Y Bo, C Liu… - Cancer Cell, 2024 - cell.com
Fibroblasts, known for their functional diversity, play crucial roles in inflammation and
cancer. In this study, we conduct comprehensive single-cell RNA sequencing analyses on …

SEACells infers transcriptional and epigenomic cellular states from single-cell genomics data

S Persad, ZN Choo, C Dien, N Sohail, I Masilionis… - Nature …, 2023 - nature.com
Metacells are cell grou**s derived from single-cell sequencing data that represent highly
granular, distinct cell states. Here we present single-cell aggregation of cell states …

Making single-cell proteomics biologically relevant

FA Rosenberger, M Thielert, M Mann - Nature Methods, 2023 - nature.com
Recent technological advances in mass spectrometry promise to add single-cell proteomics
to the biologist's toolbox. Here we discuss the current status and what is needed for this …

Time-resolved single-cell RNA-seq using metabolic RNA labelling

F Erhard, AE Saliba, A Lusser, C Toussaint… - Nature Reviews …, 2022 - nature.com
Single-cell RNA genomics technologies are revolutionizing biomedical science by profiling
single cells with unprecedented resolution, providing fundamental insights into the role of …

Single-cell transcriptomics for the assessment of cardiac disease

AMA Miranda, V Janbandhu, H Maatz… - Nature Reviews …, 2023 - nature.com
Cardiovascular disease is the leading cause of death globally. An advanced understanding
of cardiovascular disease mechanisms is required to improve therapeutic strategies and …