Transcriptional signature of influenza virus infection in primary mAECs derived from wild-type, IFNAR−/−, or STAT1−/− mice. Primary well-differentiated, polarized, ciliated mAEC cultures were infected with influenza A virus or mock treated. Total RNA was analyzed using Agilent 014868 Whole Mouse Genome Microarray 4×44k G4122F (1 color). (A) Heat map of DEGs during influenza virus infection of mAECs. Supervised analysis was performed using statistical filtering (P < 0.05; Benjamini statistical correction; 2-fold change). The numbers of upregulated and downregulated transcripts are indicated. (B) Venn diagram showing the common and species-specific transcripts for human and murine AECs during influenza virus infection. A human strain of influenza A virus (Udorn) was used to infect human AECs, and a mouse-adapted influenza virus strain (WSN) was used to infect mouse AECs. (C) Comparison of the heat maps of DEGs during influenza virus infection of wild-type, IFNAR−/−, and STAT1−/− mAECs. Supervised analysis was performed using less stringent statistical filtering (P < 0.05; 2-fold change) than for panel A. The numbers of upregulated and downregulated transcripts are indicated. (D) Venn diagram showing the common and strain-specific transcripts for mAECs of wild-type, IFANR−/−, or STAT1−/− origin during influenza virus infection. (E) Gene tree comparing the expression levels of the 3,194 influenza virus-specific DEGs in mAECs of wild-type, IFANR−/−, or STAT1−/− origin after normalization to their own noninfected controls.