The expanding vistas of spatial transcriptomics

L Tian, F Chen, EZ Macosko - Nature Biotechnology, 2023 - nature.com
The formation and maintenance of tissue integrity requires complex, coordinated activities
by thousands of genes and their encoded products. Until recently, transcript levels could …

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 …

CRISPR in cancer biology and therapy

A Katti, BJ Diaz, CM Caragine, NE Sanjana… - Nature Reviews …, 2022 - nature.com
Over the past decade, CRISPR has become as much a verb as it is an acronym,
transforming biomedical research and providing entirely new approaches for dissecting all …

Exploring tissue architecture using spatial transcriptomics

A Rao, D Barkley, GS França, I Yanai - Nature, 2021 - nature.com
Deciphering the principles and mechanisms by which gene activity orchestrates complex
cellular arrangements in multicellular organisms has far-reaching implications for research …

Spatial omics and multiplexed imaging to explore cancer biology

SM Lewis, ML Asselin-Labat, Q Nguyen, J Berthelet… - Nature …, 2021 - nature.com
Understanding intratumoral heterogeneity—the molecular variation among cells within a
tumor—promises to address outstanding questions in cancer biology and improve the …

Diverse clonal fates emerge upon drug treatment of homogeneous cancer cells

Y Goyal, GT Busch, M Pillai, J Li, RH Boe, EI Grody… - Nature, 2023 - nature.com
Even among genetically identical cancer cells, resistance to therapy frequently emerges
from a small subset of those cells,,,,,–. Molecular differences in rare individual cells in the …

Live-seq enables temporal transcriptomic recording of single cells

W Chen, O Guillaume-Gentil, PY Rainer, CG Gäbelein… - Nature, 2022 - nature.com
Single-cell transcriptomics (scRNA-seq) has greatly advanced our ability to characterize
cellular heterogeneity. However, scRNA-seq requires lysing cells, which impedes further …

[HTML][HTML] Lineage tracing reveals the phylodynamics, plasticity, and paths of tumor evolution

D Yang, MG Jones, S Naranjo, WM Rideout, KHJ Min… - Cell, 2022 - cell.com
Tumor evolution is driven by the progressive acquisition of genetic and epigenetic
alterations that enable uncontrolled growth and expansion to neighboring and distal tissues …

Nuclear compartmentalization as a mechanism of quantitative control of gene expression

P Bhat, D Honson, M Guttman - Nature Reviews Molecular Cell Biology, 2021 - nature.com
Gene regulation requires the dynamic coordination of hundreds of regulatory factors at
precise genomic and RNA targets. Although many regulatory factors have specific affinity for …

Generalizing RNA velocity to transient cell states through dynamical modeling

V Bergen, M Lange, S Peidli, FA Wolf, FJ Theis - Nature biotechnology, 2020 - nature.com
RNA velocity has opened up new ways of studying cellular differentiation in single-cell RNA-
sequencing data. It describes the rate of gene expression change for an individual gene at a …