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 …

Nasopharyngeal carcinoma ecology theory: Cancer as multidimensional spatiotemporal “unity of ecology and evolution” pathological ecosystem

W Luo - Theranostics, 2023 - pmc.ncbi.nlm.nih.gov
Nasopharyngeal carcinoma (NPC) is a particular entity of head neck cancer that is generally
regarded as a genetic disease with diverse intertumor and intratumor heterogeneity. This …

CellRank 2: unified fate map** in multiview single-cell data

P Weiler, M Lange, M Klein, D Pe'er, F Theis - Nature Methods, 2024 - nature.com
Single-cell RNA sequencing allows us to model cellular state dynamics and fate decisions
using expression similarity or RNA velocity to reconstruct state-change trajectories; however …

An invasive zone in human liver cancer identified by Stereo-seq promotes hepatocyte–tumor cell crosstalk, local immunosuppression and tumor progression

L Wu, J Yan, Y Bai, F Chen, X Zou, J Xu, A Huang… - Cell research, 2023 - nature.com
Dissecting and understanding the cancer ecosystem, especially that around the tumor
margins, which have strong implications for tumor cell infiltration and invasion, are essential …

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 …

SODB facilitates comprehensive exploration of spatial omics data

Z Yuan, W Pan, X Zhao, F Zhao, Z Xu, X Li, Y Zhao… - Nature …, 2023 - nature.com
Spatial omics technologies generate wealthy but highly complex datasets. Here we present
Spatial Omics DataBase (SODB), a web-based platform providing both rich data resources …

Custom microfluidic chip design enables cost-effective three-dimensional spatiotemporal transcriptomics with a wide field of view

J Zhu, K Pang, B Hu, R He, N Wang, Z Jiang, P Ji… - Nature Genetics, 2024 - nature.com
Spatial transcriptomic techniques offer unprecedented insights into the molecular
organization of complex tissues. However, integrating cost-effectiveness, high throughput, a …

[HTML][HTML] Spatial transcriptomics: Technologies, applications and experimental considerations

Y Wang, B Liu, G Zhao, YJ Lee, A Buzdin, X Mu, J Zhao… - Genomics, 2023 - Elsevier
The diverse cell types of an organ have a highly structured organization to enable their
efficient and correct function. To fully appreciate gene functions in a given cell type, one …

[HTML][HTML] Spatially resolved transcriptomics: a comprehensive review of their technological advances, applications, and challenges

M Cheng, Y Jiang, J Xu, AFA Mentis, S Wang… - Journal of Genetics and …, 2023 - Elsevier
The ability to explore life kingdoms is largely driven by innovations and breakthroughs in
technology, from the invention of the microscope 350 years ago to the recent emergence of …

Spatiotemporal omics for biology and medicine

L Liu, A Chen, Y Li, J Mulder, H Heyn, X Xu - Cell, 2024 - cell.com
The completion of the Human Genome Project has provided a foundational blueprint for
understanding human life. Nonetheless, understanding the intricate mechanisms through …