Niche differential gene expression analysis in spatial transcriptomics data identifies context-dependent cell-cell interactions

Abstract excerpt

Single cells influence, and are shaped by, their local spatial niche. Technologies for in situ measurement of gene expression at the transcriptome scale have enabled the detailed profiling of the spatial distributions of cell types in tissue as well as the interrogation of local signaling patterns between cell types [1]. Towards these goals, we propose a new statistical procedure called niche-differential expressi...

Topics

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• Biomarkers, Tumor
• Cancer Immunotherapy and Biomarkers
• Gene Expression Regulation, Neoplastic
• Neoplasms
• Phenotype
• Radiomics and Machine Learning in Medical Imaging
• Single-Cell Gene Expression Analysis
• Transcriptome

Identifiers and source

Literature Corpus work

5e809be3-c2b7-5605-8866-7885b28d5ddd

DOI

10.1101/2023.01.03.522646