Table 1.
Selected category of genes (based on a literature search) with changes in expression in WM853 cells with SIRT2 downregulation as determined using RNA-seq.
| Gene Symbol | Protein | Effect | Average Fold Change |
|---|---|---|---|
| Integrins | |||
| ITGA1 | integrin subunit alpha 1 | ↓ | 0.462 |
| ITGA3 | integrin subunit alpha 3 | ↑ | 2.173 |
| ITGA4 | integrin subunit alpha 4 | ↓ | 0.556 |
| ITGA5 | integrin subunit alpha 5 | ↑ | 1.588 |
| ITGA6 | integrin subunit alpha 6 | ↑ | 2.221 |
| ITGA9 | integrin subunit alpha 9 | ↑ | 2.498 |
| ITGA11 | integrin subunit alpha 11 | ↓ | 0.551 |
| ITGAE | integrin subunit alpha E | ↓ | 0.540 |
| ITGAL | integrin subunit alpha L | ↓ | 0.540 |
| Cadherins | |||
| CDH2 | cadherin 2 | ↑ | 1.770 |
| CDH19 | cadherin 19 | ↑ | 4.203 |
| Selectins | |||
| SELL | Selectin L | ↑ | 8.589 |
| Syndecans | |||
| SDC1 | syndecan 1 | ↓ | 0.300 |
| SDC2 | syndecan 2 | ↑ | 4.304 |
| Immunoglobulin-like Cell Adhesion Molecules | |||
| NCAM1 | neural cell adhesion molecule | ↑ | 21.328 |
| Receptor tyrosine kinases | |||
| EGFR | epidermal growth factor receptor | ↓ | 0.456 |
| IGF1R | insulin like growth factor 1 receptor | ↑ | 1.653 |
| IGFLR1 | IGF like family receptor 1 | ↓ | 0.647 |
| FGFR1 | fibroblast growth factor receptor 1 | ↑ | 4.052 |
| NGFR | nerve growth factor receptor | ↓ | 0.579 |
| EPHA2 | EPH receptor A2 | ↓ | 0.477 |
| EPHA3 | EPH receptor A3 | ↑ | 1.646 |
| EPHA5 | EPH receptor A3 | ↓ | 0.421 |
| EPHB3 | EPH receptor B3 | ↑ | 2.767 |
| AXL | AXL receptor tyrosine kinase | ↓ | 0.592 |
| ROR1 | receptor tyrosine kinase like orphan receptor 1 | ↑ | 2.547 |
| MAP/ERK pathway | |||
| GRB14 | growth factor receptor bound protein 14 | ↑ | 3.678 |
| RASAL1 | RAS protein activator like 1 | ↑ | 7.833 |
| RASD2 | RASD family member 2 | ↑ | 3.716 |
| RASEF | RAS and EF-hand domain containing | ↑ | 2.321 |
| RASGEF1C | RasGEF domain family member 1C | ↓ | 0.195 |
| RASGRP1 | RAS guanyl releasing protein 1 | ↑ | 6.635 |
| RASGRP3 | RAS guanyl releasing protein 3 | ↓ | 0.417 |
| RASSF2 | Ras association domain family member 2 | ↑ | 2.186 |
| RASSF4 | Ras association domain family member 4 | ↓ | 0.594 |
| RASSF5 | Ras association domain family member 5 | ↑ | 2.972 |
| MAP2K3 | mitogen-activated protein kinase kinase 3 | ↓ | 0.593 |
| MAP2K6 | mitogen-activated protein kinase kinase 6 | ↑ | 2.309 |
| MAP3K4 | mitogen-activated protein kinase kinase kinase 4 | ↓ | 0.598 |
| MAP3K14 | mitogen-activated protein kinase kinase kinase 14 | ↓ | 0.585 |
| MAP3K21 | mitogen-activated protein kinase kinase kinase 21 | ↑ | 3.521 |
| Other protein kinases | |||
| BTK | tyrosine-protein kinase BTK | ↓ | 0.342 |
| GAK | cyclin G-assiciated kinase | ↓ | 0.583 |
| LYN | tyrosine protein kinase LYN | ↓ | 0.275 |
| Cell cycle regulators | |||
| CDK5R1 | cyclin dependent kinase 5 regulatory subunit 1 | ↓ | 0.653 |
| CDK6 | Cyclin-dependent kinase 6 | ↑ | 1.660 |
| CDKL2 | cyclin dependent kinase like 2 | ↑ | 2.001 |
| CDKN1A | Cyclin-dependent kinase inhibitor 1A (P21WAF) | ↓ | 0.615 |
| CDKN2B | cyclin dependent kinase inhibitor 2B | ↑ | 4.107 |
| CDKN2C | cyclin dependent kinase inhibitor 2C | ↓ | 0.546 |
| CDKN2D | cyclin dependent kinase inhibitor 2D | ↓ | 0.587 |
Average fold change: the difference in gene expression levels between WM853 SCW3 and WM853 SSW30 clones was counted as the mean fold change in the deseq, deseq2 and edgeR analyses.