Figure 5

The SARS-CoV-2 in vitro transcriptional signatures overlap with signatures of host responses to other virus in other model systems and patient samples. (a) Gene expression profiles of lung samples from mice infected with SARS viruses other than SARS-CoV-2 were probed according to the SARS-CoV-2 transcriptional signatures. Differential SARS-CoV-2-associated expression patterns common to all three cell lines (NHBE, A549, Calu-3) or found for just one or two cell lines (from Fig. 2b,c) are shown for both the in vitro SARS-CoV-2 infection dataset and the three independent SARS mouse datasets (GSE36969, GSE59185¹⁹, GSE68820²⁰). Gene order is the same across all datasets. Mouse datasets involve different variants of the SARS-CoV-MA15 virus, in addition to wild-type. (b) A gene expression profiling dataset of blood and lung samples obtained from mice infected or challenged with Toxoplasma gondii, Influenza A virus, Respiratory Syncytial virus (RSV), acute Burkholderia pseudomallei, Candida albicans, and House dust mite (HDM) allergen (GSE119856²¹) was probed for the SARS-CoV-2 transcriptional signatures. Gene order is the same for both datasets. Selected patterns of manifestation of SARS-CoV-2 signatures within the GSE119856 mouse lung samples are highlighted. (c) A gene expression dataset of 418 patient from both viral-associated and non-viral nasal lavage samples²² (GSE115770) was probed for the SARS-CoV-2 transcriptional signatures. Gene order is the same for both datasets. GSE115770 profiles are ordered by virus (HRV/EV, HCoV-NL63, HCoV-HKU1, RSV, HBoV, ADV, HPIV, MPV, flu). Under the differential expression heat maps, scores for each of the SARS-CoV-2 signatures across the GSE115770 profiles are represented (orange-cyan heatmap).