Table 2

Upstream Regulator analysis of mouse, macaque and swine CA04 infection models
Upstream regulator Molecule type p-value of overlap Regulation z-score (dpi) Predicted regulator status
Mouse
 STAT3 transcription regulator 1.68E-17
 STAT1 transcription regulator 2.80E-17 2.747 (3); 2.124 (5) Activated
 PPARA ligand-dependent nuclear receptor 1.12E-15
 NFκB (complex)* complex 2.37E-13 2.463 (3); 2.787 (5) Activated
 JUN transcription regulator 6.74E-13 2.072 (5) Activated
 YY1 transcription regulator 4.65E-12
 SMAD3 transcription regulator 5.13E-12
 IRF7 transcription regulator 3.52E-11 2.994 (3); 2.532 (5) Activated
 IRF1 transcription regulator 4.14E-11 2.125 (3) Activated
 HNF1A* transcription regulator 5.01E-11 -3.166 (1); -3.743 (3); -3.035 (5) Inhibited
Macaque
 IRF1 transcription regulator 2.16E-10 2.547 (1) Activated
 SPI1 transcription regulator 4.74E-08 2.490 (1) Activated
 TRIM24 transcription regulator 2.43E-07 -3.395 (1, 6) Inhibited
 IRF7 transcription regulator 4.98E-07 4.284 (1, 6) Activated
 STAT3 transcription regulator 4.31E-06 2.096 (1, 6) Activated
 STAT1 transcription regulator 1.15E-05 3.232 (1); 3.57 (6) Activated
 JUN transcription regulator 1.57E-05
 IRF8 transcription regulator 7.08E-05
 VitaminD3-VDR-RXR complex 7.75E-05
 ELF1 transcription regulator 9.71E-05
Swine
 STAT1* transcription regulator 6.54E-14 2.823 (3); 3.157 (5) Activated
 TRIM24 transcription regulator 2.59E-11
 IRF1* transcription regulator 7.54E-11
 PPARA ligand-dependent nuclear receptor 2.34E-09 -2.001 (3) Inhibited
 STAT3 transcription regulator 2.35E-09
 NFκB complex complex 2.48E-09 3.01 (5) Activated
 IRF2* transcription regulator 7.64E-09
 IRF7 transcription regulator 1.52E-08
 JUN transcription regulator 4.38E-08
 NFKB1 transcription regulator 2.32E-07 2.136 (7) Activated

Ingenuity Pathway Analysis was used to determine the top 10 Upstream Regulators. The p-value of overlap was used to rank the significance associated for each Upstream Regulator. The p-value indicates the significance of the overlap between the genes targeted by the upstream regulator in the IPKB database and the experimental dataset. Genes with an apteryx signify regulators that were identified as significantly enriched (P < 0.0001) by PSCAN. Z-scores for predicted upstream regulators (|z|>2) in each species and at each time point are shown. Z > 2 predicts activation of the upstream regulator. Z < -2 predicts inhibition of the upstream regulator.

Go et al.

Go et al. BMC Genomics 2012 13:627   doi:10.1186/1471-2164-13-627

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