Table 4.
GSEA results for modules associated with exacerbations phenotypes (gene sets with FDR q-value < 0.25 are shown and viral response gene sets are in bold)
| Module name | Gene set description | ID | Set overlap | P-value | FDR q-value |
|---|---|---|---|---|---|
| White (negative)* | NAIVE_BCELL_VS_MONOCYTE_UP | GSE22886 | 15 | 0.084 | 0.207 |
| CD4_TCELL_VS_BCELL_DN | GSE10325 | 18 | 0.122 | 0.230 | |
| BCELL_VS_MONOCYTE_DAY7_FLU_VACCINE_P | GSE29618 | 17 | 0.185 | 0.216 | |
| Royalblue (positive)* | NAIVE_VS_PD1LOW_CD8_TCELL_DN | GSE26495 | 28 | 0.004 | 0.048 |
| HEALTHY_VS_RSV_INF_INFANT_PBMC_UP | GSE34205 | 15 | 0.016 | 0.062 | |
| DEURIG_T_CELL_PROLYMPHOCYTIC_LEUKEMIA_DN | 18 | 0.055 | 0.151 | ||
| Lightgreen (negative)* | BCELL_VS_MDC_DAY7_FLU_VACCINE_UP | GSE29618 | 17 | 0.006 | 0.095 |
| CD4_TCELL_VS_BCELL_DN | GSE10325 | 19 | 0.012 | 0.05 | |
| BCELL_VS_MDC_UP | GSE29618 | 15 | 0.012 | 0.043 | |
| LUPUS_CD4_TCELL_VS_LUPUS_BCELL_DN | GSE10325 | 20 | 0.01 | 0.046 | |
| DODD_NASOPHARYNGEAL_CARCINOMA_UP | 15 | 0.023 | 0.068 | ||
| BCELL_VS_MONOCYTE_DAY7_FLU_VACCINE_UP | GSE29618 | 21 | 0.025 | 0.064 | |
| BCELL_VS_MYELOID_UP | GSE10325 | 15 | 0.045 | 0.064 | |
| NAIVE_BCELL_VS_MONOCYTE_UP | GSE22886 | 17 | 0.06 | 0.078 | |
| BCELL_VS_MONOCYTE_UP | GSE29618 | 23 | 0.075 | 0.121 | |
| CAGGTG_V$E12_Q6 | 16 | 0.116 | 0.149 | ||
| MEMORY_CD4_TCELL_VS_BCELL_DN | GSE3982 | 17 | 0.137 | 0.14 | |
| Darkturquoise (positive)* | NAIVE_VS_PD1LOW_CD8_TCELL_DN | GSE26495 | 26 | 0.057 | 0.090 |
| NAIVE_VS_PD1HIGH_CD8_TCELL_DN | GSE26495 | 19 | 0.158 | 0.166 | |
| Darkgrey (positive)* | CTRL_VS_NEWCASTLE_VIRUS_DC_8H_DN | GSE18791 | 30 | 0.000 | 0.012 |
| BOSCO_INTERFERON_INDUCED_ANTIVIRAL_MODULE | 18 | 0.003 | 0.038 | ||
| UNSTIM_VS_4H_LPS_DC_TRANSLATED_RNA_DN | GSE14000 | 23 | 0.002 | 0.030 | |
| MOSERLE_IFNA_RESPONSE | 17 | 0.011 | 0.104 | ||
| TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_10D_UP | 20 | 0.016 | 0.094 | ||
| UNSTIM_VS_NEWCATSLE_VIRUS_DC_18H_DN | GSE18791 | 19 | 0.013 | 0.093 | |
| UNSTIM_VS_NEWCATSLE_VIRUS_DC_6H_DN | GSE18791 | 31 | 0.031 | 0.105 | |
| CTRL_VS_NEWCASTLE_VIRUS_DC_10H_DN | GSE18791 | 21 | 0.013 | 0.095 | |
| CTRL_VS_NEWCASTLE_VIRUS_DC_12H_DN | GSE18791 | 19 | 0.026 | 0.134 | |
| UNSTIM_VS_4H_LPS_DC_DN | GSE14000 | 24 | 0.031 | 0.141 | |
| UNSTIM_VS_NEWCATSLE_VIRUS_DC_10H_DN | GSE18791 | 26 | 0.034 | 0.161 | |
| CTRL_VS_NEWCASTLE_VIRUS_DC_4H_DN | GSE18791 | 22 | 0.052 | 0.166 | |
| CTRL_VS_NEWCASTLE_VIRUS_DC_6H_DN | GSE18791 | 27 | 0.054 | 0.170 | |
| BCELL_VS_LUPUS_BCELL_DN | GSE10325 | 17 | 0.094 | 0.250 | |
| HECKER_IFNB1_TARGETS | 21 | 0.102 | 0.246 |
*Positive or negative correlation between module and phenotype.