SM3DD with Segmented PCA: A Comprehensive Method for Interpreting 3D Spatial Transcriptomics

Abstract excerpt

We developed Standardised Minimum 3D Distance (SM3DD), an entirely cell segmentation/annotation-free approach to the analysis of spatial RNA datasets, using it to compare lung tissue from 16 clinically normal individuals to those of 18 SARS-CoV-2 patients who died from acute respiratory distress syndrome. RNA spatial coordinates were determined using the CosMx™ Spatial Molecular Imager (Bruker Spatial Biology, US)...

Topics

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• Cell Culture Techniques
• Data Interpretation, Statistical
• Drug Discovery
• Drug Screening Assays, Antitumor
• High-Throughput Screening Assays
• Interstitial Lung Diseases and Idiopathic Pulmonary Fibrosis
• Medical Imaging and Pathology Studies
• Occupational and environmental lung diseases

Identifiers and source

Literature Corpus work

4639db93-6ae6-5337-be56-d1436ef329ac

DOI

10.1101/2025.04.17.649456