Spatial transcriptomics atlas reveals the crosstalk between cancer-associated fibroblasts and tumor microenvironment components in colorectal cancer

Z Peng, M Ye, H Ding, Z Feng, K Hu - Journal of Translational Medicine, 2022 - Springer
… previously published spatial transcriptomics (ST) data and profiled a spatial atlas of TME …
In detail, we combined spatial transcriptomics with ssGSEA to precisely identify different cell …

Building a tumor atlas: integrating single-cell RNA-Seq data with spatial transcriptomics in pancreatic ductal adenocarcinoma

R Moncada, M Chiodin, JC Devlin, M Baron, CH Hajdu… - BioRxiv, 2018 - biorxiv.org
… , the characterization of their spatial organization within it has been more elusive. The
recently introduced ‘spatial transcriptomics’ method (ST) reveals the spatial pattern of gene …

Exploring tissue architecture using spatial transcriptomics

A Rao, D Barkley, GS França, I Yanai - Nature, 2021 - nature.com
… surveys, the large-scale atlases generated by this technology lend … Here we review spatial
transcriptomic technologies and … The use of spatial transcriptomics to generate spatial atlases

Spatial transcriptomics technology in cancer research

Q Yu, M Jiang, L Wu - Frontiers in Oncology, 2022 - frontiersin.org
… In recent years, spatial transcriptomics (ST) technologies have developed rapidly and have
been widely used in constructing spatial tissue atlases and characterizing spatiotemporal …

Estimation of cell lineages in tumors from spatial transcriptomics data

B Ru, J Huang, Y Zhang, K Aldape, P Jiang - Nature Communications, 2023 - nature.com
Spatial transcriptomics (ST) technology through in situ capturing has enabled topographical
gene expression profiling of tumor tissues. … Cell type deconvolution in tumor ST data remains …

Integration of pan-cancer single-cell and spatial transcriptomics reveals stromal cell features and therapeutic targets in tumor microenvironment

Y Du, J Shi, J Wang, Z Xun, Z Yu, H Sun, R Bao… - Cancer Research, 2024 - AACR
… To establish a single-cell transcriptome atlas of human stromal cells, we collected 306
primary patient tumors and 122 adjacent normal tissues spanning 16 cancer types from public …

Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas

R Moncada, D Barkley, F Wagner, M Chiodin… - Nature …, 2020 - nature.com
spatial organization remains challenging. We combine a microarray-based spatial transcriptomics
method that reveals spatial … Such ISH atlases used for tissue with defined morphology …

The web-based portal SpatialTME integrates histological images with single-cell and spatial transcriptomics to explore the tumor microenvironment

J Shi, X Wei, Z Xun, X Ding, Y Liu, L Liu, Y Ye - Cancer Research, 2024 - AACR
… The intercellular interactions in the TME contribute to tumor initiation, progression, … spatial
transcriptomics (ST) have revolutionized the molecular understanding of the TME at the spatial

Spatial transcriptomics in health and disease

S Jain, MT Eadon - Nature Reviews Nephrology, 2024 - nature.com
… the generation of comprehensive molecular atlases, and provide … of current and emerging
spatial transcriptomic methods, their … In addition to atlas-building efforts, spatial transcriptomics

Comprehensive analysis of bulk, single-cell RNA sequencing, and spatial transcriptomics revealed IER3 for predicting malignant progression and immunotherapy …

Q Wang, C Zhang, Y Pang, M Cheng, R Wang… - Cancer Cell …, 2024 - Springer
… Samples in the high IER3 subgroup were characterized by increased infiltration of tumor-associated
monocytes/macrophages (TAMMs), as well as the elevated sensitivity to Dabrafenib, …