Differential Expression and Enrichment Analysis
The raw counts from the SARS-coV-2 transcriptomic profiles were
subjected to differential expression analysis by DESEq2 v1.26.0 .
Subsequently the genes were pre-ranked using the p-values from DESeq2
analysis and subjected to pre-ranked gene set enrichment analysis (GSEA)
. Gene sets with FDR <0.05 were considered to be statistically
significant and were visualized using EnrichmentMap plugin of Cytoscape
. For drug signatures from iLINCS, differentially expressed genes with
p<0.05 were considered to be statistically significant.
Enrichment of kinase perturbation was carried out using Enrichr .