Introducing single cell stereo-sequencing technology to transform the plant transcriptome landscape

G Bawa, Z Liu, X Yu, LSP Tran, X Sun - Trends in Plant Science, 2024 - cell.com
Single cell RNA-sequencing (scRNA-seq) advancements have helped detect transcriptional
heterogeneities in biological samples. However, scRNA-seq cannot currently provide high …

Inferring super-resolution tissue architecture by integrating spatial transcriptomics with histology

D Zhang, A Schroeder, H Yan, H Yang, J Hu… - Nature …, 2024 - nature.com
Spatial transcriptomics (ST) has demonstrated enormous potential for generating intricate
molecular maps of cells within tissues. Here we present iStar, a method based on …

STOmicsDB: a comprehensive database for spatial transcriptomics data sharing, analysis and visualization

Z Xu, W Wang, T Yang, L Li, X Ma, J Chen… - Nucleic acids …, 2024 - academic.oup.com
Recent technological developments in spatial transcriptomics allow researchers to measure
gene expression of cells and their spatial locations at the single-cell level, generating …

Dissecting and visualizing the functional diversity of cardiac macrophages

M Holt, J Lin, M Cicka, A Wong, S Epelman… - Circulation …, 2024 - Am Heart Assoc
Cardiac macrophages represent a functionally diverse population of cells involved in
cardiac homeostasis, repair, and remodeling. With recent advancements in single-cell …

CROST: a comprehensive repository of spatial transcriptomics

G Wang, S Wu, Z Xiong, H Qu, X Fang… - Nucleic Acids …, 2024 - academic.oup.com
The development of spatial transcriptome sequencing technology has revolutionized our
comprehension of complex tissues and propelled life and health sciences into an era of …

KCTD1/KCTD15 complexes control ectodermal and neural crest cell functions, and their impairment causes aplasia cutis

JR Raymundo, H Zhang, G Smaldone… - The Journal of …, 2024 - Am Soc Clin Investig
Aplasia cutis congenita (ACC) is a congenital epidermal defect of the midline scalp and has
been proposed to be due to a primary keratinocyte abnormality. Why it forms mainly at this …

Spatially organized cellular communities form the developing human heart

EN Farah, RK Hu, C Kern, Q Zhang, TY Lu, Q Ma… - Nature, 2024 - nature.com
The heart, which is the first organ to develop, is highly dependent on its form to function,.
However, how diverse cardiac cell types spatially coordinate to create the complex …

Inferring histology-associated gene expression gradients in spatial transcriptomic studies

J Kueckelhaus, S Frerich, J Kada-Benotmane… - Nature …, 2024 - nature.com
Spatially resolved transcriptomics has revolutionized RNA studies by aligning RNA
abundance with tissue structure, enabling direct comparisons between histology and gene …

Principled and interpretable alignability testing and integration of single-cell data

R Ma, ED Sun, D Donoho, J Zou - Proceedings of the …, 2024 - National Acad Sciences
Single-cell data integration can provide a comprehensive molecular view of cells, and many
algorithms have been developed to remove unwanted technical or biological variations and …

A data-driven single-cell and spatial transcriptomic map of the human prefrontal cortex

LA Huuki-Myers, A Spangler, NJ Eagles… - Science, 2024 - science.org
The molecular organization of the human neocortex historically has been studied in the
context of its histological layers. However, emerging spatial transcriptomic technologies …