Fig. 1

Spatial Transcriptomics SARS-CoV-2 capture validated by RNAScope and in situ sequencing (ISS). a Overview of the study. 16,688 human host genes and 10 SARS-CoV-2 pathogen genes were assayed across 3 lung samples from SARS-CoV-2 infected patients and 2 lung samples from control patients. b SARS-CoV-2 detection in control sections with human and SARS-CoV-2 probes added (HS), in COVID-19 sections with human and SARS-CoV-2 probes added (HS), and in COVID-19 sections with only human probes added (H). c SARS-CoV-2 S gene detection by ST and RNAScope in consecutive sections of the 1C sample. Full tissue section scale bars are 550 µm and zoomed-in panel scale bars are 20 µm. d Detection of SARS-CoV-2 S and E genes by ST and in situ sequencing (ISS). All scale bars are 550 µm. e Distribution of ST S gene, RNAScope S gene, and ISS S gene signals across sample 1C. f SARS-CoV-2 ST S gene, RNAScope S gene, and ISS S gene signals across a portion of sample 1C. Scale bars are 900 µm