. 2018 Mar 13;13(3):e0193334. doi: 10.1371/journal.pone.0193334

Table 1. Enrichment analysis of the DE genes in normal basal AEC and dAEC 8 hours after mechanical injury.

Feature ID Name	Cell Type	Genes	P Value	Bayes
GO:0001817 regulation of cytokine production	Normal dAEC	ADAM8 CCL2 CD83 CSF2 CYP1B1 HERC5 IFIH1 IKBKE IL1A IL1B IL23A IL36G IL6 ISL1 KLF4 MAP2K3 NFKB2 PDE4B PELI1 PTGS2 STAT5A TICAM1 TNF TNFAIP3 ZBP1 ZC3H12A ZP3	1.88E-14	26.558
GO:0001817 regulation of cytokine production	Normal Basal AEC	ATF4 CSF2 HMOX1 IDO1 IL17C IL1B IL23A IL36G IL6 IRAK3 KLF4 NFKB2 TICAM1 TNF TNFAIP3 ZC3H12A	6.79E-09	14.25
GO:0006954 inflammatory response	Normal dAEC	ADAM8 ADORA2A CCL2 CXCL10 IL1A IL1B IL23A IL36G IL6 IRAK2 MAP2K3 NFKB2 NOS2 PLA2G4C PTGS2 TICAM1 TNF TNFAIP3 TNFAIP6 TNIP1 TNIP3 VNN1	1.02E-13	24.842
GO:0006954 inflammatory response	Normal Basal AEC	CXCL10 CXCL2 HDAC9 IL17C IL19 IL1B IL23A IL36G IL6 IRAK2 NFKB2 TICAM1 TNF TNFAIP3 TNFAIP6 TNIP1	1.77E-11	20.148
GO:0043067 regulation of programmed cell death	Normal dAEC	ADAM8 ADORA2A ATF3 BCL11B BIRC3 CARD10 CCL2 CLCF1 CSF2 CYP1B1 CYR61 DEPTOR EDN1 GDF15 ICAM1 IFIH1 IFIT2 IFIT3 IL1A IL1B IL1RN IL6 ISL1 JUN KLF4 MAP2K3 MAP3K8 OSGIN1 PIM1 PIM3 PLAUR PMAIP1 PTGS2 SNCA SOD2 SQSTM1 STAT5A TICAM1 TNF TNFAIP3 TP53BP2 VAV3 VNN1	9.00E-14	25.099
GO:0043067 regulation of programmed cell death	Normal Basal AEC	ATF3 ATF4 BID BIRC3 CSF2 GDF15 HMOX1 IDO1 IL19 IL1B IL1RN IL6 IRS2 JUN KLF4 MAP3K8 OSGIN1 PLAUR PMAIP1 RHOB SGK1 SIRT1 SOD2 TICAM1 TNF TNFAIP3 TP53BP2	1.98E-09	15.571
GO:0080134 regulation of response to stress	Normal dAEC	ADAM8 ADORA2A BIRC3 C1QTNF1 DUOXA2 EDN1 HBEGF HERC5 IFIH1 IFIT1 IKBKE IL1A IL1B IL1RN IL23A IL6 IRAK2 ISL1 ITGAM ITPKC JUN KLF4 MAP2K3 NFKB2 PELI1 PLAU PLAUR PMAIP1 PPP1R15A PTGS2 SASH1 SESN3 SH2D1B SLC7A2 SNCA SOD2 SQSTM1 STAT5A TICAM1 TNF TNFAIP3 TNFAIP6 TNIP1 TNIP3 VNN1 ZBP1 ZP3	2.08E-18	35.719
GO:0080134 regulation of response to stress	Normal Basal AEC	ATF4 BIRC3 C1QTNF1 CFB IDO1 IL17C IL1B IL1RN IL23A IL6 IRAK2 IRAK3 JUN KLF4 NFKB2 PLAUR PMAIP1 PPP1R15A SIRT1 SLC7A2 SOD2 TICAM1 TNF TNFAIP3 TNFAIP6 TNIP1	9.32E-10	16.31
GO:1903034 regulation of response to wounding	Normal dAEC	ADAM8 ADORA2A BIRC3 C1QTNF1 DUOXA2 EDN1 HBEGF IL1B IL23A IL6 ISL1 KLF4 PLAU PLAUR PTGS2 SLC7A2 STAT5A TNF TNFAIP3 TNFAIP6 TNIP1 ZP3	6.87E-13	22.948
GO:1903034 regulation of response to wounding	Normal Basal AEC	BIRC3 C1QTNF1 CFB IDO1 IL17C IL1B IL23A IL6 KLF4 PLAUR SLC7A2 TNF TNFAIP3 TNFAIP6 TNIP1	7.26E-10	16.454
KEGG:hsa04668 TNF signaling pathway	Normal dAEC	BIRC3 CCL2 CSF2 CXCL10 EDN1 ICAM1 IL1B IL6 JUN MAP2K3 MAP3K8 PTGS2 TNF TNFAIP3	5.39E-13	23.123
KEGG:hsa04668 TNF signaling pathway	Normal Basal AEC	ATF4 BIRC3 CSF2 CXCL10 CXCL2 IL1B IL6 JUN MAP3K8 TNF TNFAIP3	1.23E-11	20.465
REACT_75790 Cytokine Signaling in Immune system	Normal dAEC	CSF2 HERC5 ICAM1 IFIT1 IFIT2 IFIT3 IL1A IL1B IL1RN IL6 IL7R IRAK2 MAP3K8 MX1 MX2 NFKB2 OAS2 OAS3 OASL PELI1 SQSTM1 STAT5A TRIM31	2.09E-15	28.718
REACT_75790 Cytokine Signaling in Immune system	Normal Basal AEC	CSF2 IL1B IL1RN IL6 IRAK2 IRAK3 IRS2 MAP3K8 NFKB2 TRIM31 TRIM6	6.29E-07	9.708
WP1449 Regulation of toll-like receptor signaling pathway	Normal dAEC	CXCL10 IKBKE IL1B IL6 IRAK2 JUN MAP2K3 MAP3K8 NFKB2 PELI1 SQSTM1 TICAM1 TNF TNFAIP3	3.26E-11	19.039
WP1449 Regulation of toll-like receptor signaling pathway	Normal Basal AEC	CXCL10 IL1B IL6 IRAK2 IRAK3 JUN MAP3K8 NFKB2 TICAM1 TNF TNFAIP3	3.13E-10	17.244