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 …

Integrating single-cell and spatial transcriptomics to elucidate intercellular tissue dynamics

SK Longo, MG Guo, AL Ji, PA Khavari - Nature Reviews Genetics, 2021 - nature.com
Single-cell RNA sequencing (scRNA-seq) identifies cell subpopulations within tissue but
does not capture their spatial distribution nor reveal local networks of intercellular …

Robust mapping of spatiotemporal trajectories and cell–cell interactions in healthy and diseased tissues

D Pham, X Tan, B Balderson, J Xu, LF Grice… - Nature …, 2023 - nature.com
Spatial transcriptomics (ST) technologies generate multiple data types from biological
samples, namely gene expression, physical distance between data points, and/or tissue …

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 …

Museum of spatial transcriptomics

L Moses, L Pachter - Nature methods, 2022 - nature.com
The function of many biological systems, such as embryos, liver lobules, intestinal villi, and
tumors, depends on the spatial organization of their cells. In the past decade, high …

Spatial-CUT&Tag: spatially resolved chromatin modification profiling at the cellular level

Y Deng, M Bartosovic, P Kukanja, D Zhang, Y Liu, G Su… - Science, 2022 - science.org
Spatial omics emerged as a new frontier of biological and biomedical research. Here, we
present spatial-CUT&Tag for spatially resolved genome-wide profiling of histone …

The role of m6A modification in the biological functions and diseases

X Jiang, B Liu, Z Nie, L Duan, Q Xiong, Z Jin… - Signal transduction and …, 2021 - nature.com
Abstract N6-methyladenosine (m6A) is the most prevalent, abundant and conserved internal
cotranscriptional modification in eukaryotic RNAs, especially within higher eukaryotic cells …

Spatiotemporal transcriptomic atlas of mouse organogenesis using DNA nanoball-patterned arrays

A Chen, S Liao, M Cheng, K Ma, L Wu, Y Lai, X Qiu… - Cell, 2022 - cell.com
Spatially resolved transcriptomic technologies are promising tools to study complex
biological processes such as mammalian embryogenesis. However, the imbalance between …

HypoMap—a unified single-cell gene expression atlas of the murine hypothalamus

L Steuernagel, BYH Lam, P Klemm, GKC Dowsett… - Nature …, 2022 - nature.com
The hypothalamus plays a key role in coordinating fundamental body functions. Despite
recent progress in single-cell technologies, a unified catalog and molecular characterization …

A transcriptomic atlas of mouse cerebellar cortex comprehensively defines cell types

V Kozareva, C Martin, T Osorno, S Rudolph, C Guo… - Nature, 2021 - nature.com
The cerebellar cortex is a well-studied brain structure with diverse roles in motor learning,
coordination, cognition and autonomic regulation. However, a complete inventory of …