Table 2.
Cellular stress response upregulated by mEHT treatment. Genes (official name abbreviations as used in all multiplex platforms and descriptions of the coded proteins) detected as upregulated with all three multiplex methods (NGS RNA Seq, Nanostring, MS) are designated with bold letters. Nanostring validated all NGS hits with a similar FC value. Hspa1a and Hspa1b are the most common isoforms of Hsp70. Cell line: 4T1, 3× treated.
| Nr. | Gene Name | Description | NGS | Nanostring | MS | |||
|---|---|---|---|---|---|---|---|---|
| FC | p | FC | p | LFQ Intensity Difference | p | |||
| Protease inhibitors | ||||||||
| 1 | Itih2 | inter-alpha trypsin inhibitor. heavy chain 2 | 31.1 | 2.1 × 10−5 | * | 2.9 | 7.7 × 10−5 | |
| 2 | Itih4 | inter alpha-trypsin inhibitor. heavy chain 4 | 22.7 | 2.7 × 10−4 | 9.5 | 0.005 | 2.5 | 6.1 × 10−5 |
| 3 | Serpina3n | serine (or cysteine) peptidase inhibitor. clade A. member 3N | 8.4 | 6.8 × 10−4 | 8.1 | 9.11 × 10−5 | 3.2 | 6.1 × 10−4 |
| 4 | Serpina3c | serine (or cysteine) peptidase inhibitor. clade A. member 3C | 7.0 | 0.011 | 5.3 | 5.0 × 10−4 | Not detected | Not detected |
| 5 | Serpina3m | serine (or cysteine) peptidase inhibitor. clade A. member 3M | 6.4 | 0.001 | 6.2 | 6.1 × 10−5 | 0.1 | 0.891 |
| Coagulation factors | ||||||||
| 6 | Fgb | fibrinogen beta chain | 28.4 | 2.1 × 10−4 | * | 2.4 | 5.2 × 10−6 | |
| 7 | Fgg | fibrinogen gamma chain | 15.0 | 0.006 | 14.2 | 0.003 | 2.1 | 3.8 × 10−5 |
| 8 | Hp | haptoglobin | 9.7 | 7.4 × 10−4 | 7.5 | 2.5 × 10−4 | 4.7 | 8.3 × 10−4 |
| Complement factors | ||||||||
| 9 | Ptx3 | pentraxin related gene | 5.6 | 0.046 | 10.1 | 7.5 × 10−4 | Not detected | Not detected |
| 10 | Cfd | complement factor D (adipsin) | 10.0 | 0.001 | 7.8 | 8.8 × 10−4 | 2.0 | 0.001 |
| 11 | C4b | complement component 4B (Chido blood group) | 4.6 | 0.03 | 4.8 | 0.001 | 3.1 | 2.9 × 10−4 |
| 12 | Hc | hemolytic complement | 3.9 | 0.04 | 1.9 | 0.335 | 1.2 | 1.7 × 10−4 |
| 13 | C1s1 | complement component 1. s subcomponent 1 | 3.4 | 0.049 | 3.3 | 0.002 | Not detected | Not detected |
| Heat shock factors | ||||||||
| Hspb1 | Heat shock protein beta-1 | 3.8 | 0.075 | not investigated | 2.7 | 1.1 × 10−5 | ||
| Hspa1a | Heat shock 70 kDa protein 1A | 2.0 | 0.551 | not investigated | 2.1 | 1.3 × 10−5 | ||
| Hspa1b | Heat shock 70 kDa protein 1B | 2.4 | 0.362 | |||||
| Hsph1 | Heat shock protein 105 kDa | 1.8 | 0.761 | not investigated | 1.3 | 0.023 | ||
* uniquely expressed in mEHT-treated samples but not in the sham-treated tumors, no FC applies by the nanostring evaluation.