Table 1.
Cytokine-induced differential gene expression as determined by RNA-Seq
Results are mean ± S.D. for three independent measurements.
| Gene | Control (FKPM) | Cytokine (FKPM) | -Fold change | Protein function |
|---|---|---|---|---|
| SLC30A8 | 287.2 ± 10.4 | 169.1 ± 3.0 | 0.6 | ZnT8, ISG/ER zinc sequestration |
| SLC39A7 | 113.0 ± 2.4 | 129.3 ± 4.1 | 1.1 | ZIP7, ER/Golgi zinc release |
| INS + read-throughs | 30,768.8 ± 1,367.6 | 24,920.6 ± 688.2 | 0.8 | Insulin, ISG |
| IRE1 | 4.3 ± 0.2 | 9.9 ± 0.2 | 2.3 | UPR sensor |
| PERK | 7.9 ± 0.5 | 12.1 ± 1.3 | 1.5 | UPR sensor |
| ATF6 | 9.3 ± 0.4 | 8.2 ± 0.1 | 0.9 | UPR sensor |
| CREB3 | 19.9 ± 0.2 | 29.7 ± 0.9 | 1.5 | ATF6-assocated UPR sensor |
| BIP | 186.3 ± 5.0 | 466.8 ± 8.1 | 2.5 | ER chaperone protein |
| CANX | 321.6 ± 13.4 | 469.9 ± 27.1 | 1.5 | ER chaperone protein |
| CALR | 647.1 ± 12.9 | 1,201.0 ± 14.5 | 1.9 | ER chaperone protein |
| PDIA3 | 438.2 ± 8.4 | 882.3 ± 1.8 | 2.0 | Protein-disulfide isomerase |
| PDIA4 | 130.5 ± 2.5 | 353.9 ± 6.7 | 2.7 | Protein-disulfide isomerase |
| PGIA6 | 208.2 ± 1.9 | 403.2 ± 1.8 | 1.9 | Protein-disulfide isomerase |
| XBP1 | 119.4 ± 1.0 | 203.2 ± 1.5 | 1.7 | Adaptive UPR kinase |
| ATF4 | 178.8 ± 5.2 | 214.4 ± 0.1 | 1.2 | Adaptive UPR kinase |
| NFKB1 | 10.1 ± 0.4 | 17.5 ± 0.5 | 1.7 | Proinflammatory signaling kinase |
| NFKB2 | 8.7 ± 0.5 | 34.9 ± 0.2 | 4.0 | Proinflammatory signaling kinase |
| MAPK8 (JNK1) | 26.6 ± 0.9 | 20.9 ± 0.5 | 0.8 | Proapoptotic UPR kinase |
| MAPK9 (JNK2) | 22.6 ± 0.6 | 17.2 ± 0.4 | 0.8 | Proapoptotic UPR kinase |
| MAPK10 (JNK3) | 24.6 ± 0.8 | 27.3 ± 0.9 | 1.1 | Proapoptotic UPR kinase |
| CHOP (DDIT3) | 12.6 ± 0.6 | 36.7 ± 1.9 | 2.9 | Proapoptotic UPR kinase |
| CASP2 | 40.3 ± 0.18 | 23.2 ± 0.6 | 0.6 | Proapoptotic caspase cascade |
| CASP3 | 25.5 ± 0.5 | 40.8 ± 0.5 | 1.6 | Proapoptotic caspase cascade |
| CASP4 | 4.8 ± 0.4 | 58.6 ± 3.2 | 12.2 | Proapoptotic caspase cascade |
| CASP9 | 8.3 ± 0.4 | 6.5 ± 0.6 | 0.8 | Proapoptotic caspase cascade |
| PSMB8 | 10.7 ± 0.3 | 1,371.2 ± 16.6 | 128.1 | ERADE, immunoproteasomes, LMP7 |
| PSMB9 | 1.7 ± 0.2 | 742.1 ± 7.9 | 436.5 | ERADE, immunoproteasomes, LMP2 |
| PSMB10 | 21.4 ± 1.4 | 205.8 ± 2.1 | 9.6 | ERADE, immunoproteasomes, MECl-1 |