The top 20 differentially expressed genes in HeLa cells that take up high numbers of 40 nm polystyrene nanoparticles. Cells were sorted 5 times with the threshold set to separate the 1% of cells exhibiting the lowest and highest nanoparticle uptake, respectively. Unsorted cells subcultured an equivalent number of times were used as control. RNA sequencing was performed on the three samples and the expressed genes identified. Differentially expressed genes were selected as described in the Experimental section and as partially indicated by Fig. 5c. The full list is available as ESI;† here only the first 20 are shown when ordered by the change in the high uptakers compared to unsorted cells (“high fold change”).
| Name | Description | Unsorted (rpma) | Low (rpma) | High (rpma) | Low fold changeb | High fold changeb |
|---|---|---|---|---|---|---|
| SERTAD4 | SERTA domain containing 4 | 0 | 0 | 3.779 | — | Infc |
| FLI1 | Fli-1 proto-oncogene, ETS transcription factor | 0 | 0 | 4.535 | — | Infc |
| CD33 | CD33 molecule | 0 | 0 | 3.779 | — | Infc |
| LINC01234 | Long intergenic non-protein coding RNA 1234 | 0 | 0 | 3.779 | — | Infc |
| POSTN | Periostin | 0 | 0 | 7.558 | — | Infc |
| CPEB1 | Cytoplasmic polyadenylation element binding protein 1 | 0 | 0 | 3.779 | — | Infc |
| RPL15P18 | Ribosomal protein L15 pseudogene 18 | 0 | 0 | 3.779 | — | Infc |
| PGK1P2 | Phosphoglycerate kinase 1, pseudogene 2 | 0 | 0 | 3.779 | — | Infc |
| AC125238.2 | Zinc finger protein 207 (ZNF207) pseudogene | 0 | 0 | 3.779 | — | Infc |
| KCNMA1 | Potassium calcium-activated channel subfamily M alpha 1 | 0 | 0 | 4.535 | — | Infc |
| ROS1 | ROS proto-oncogene 1, receptor tyrosine kinase | 0 | 0 | 4.535 | — | Infc |
| MAGED1 | MAGE family member D1 | 0 | 0 | 3.779 | — | Infc |
| AC006262.2 | Novel transcript | 0.255 | 0 | 7.558 | 0 | 29.611 |
| HHAT | Hedgehog acyltransferase | 0.255 | 0 | 6.803 | 0 | 26.65 |
| CACNA1G | Calcium voltage-gated channel subunit alpha1 G | 0.766 | 0.434 | 14.361 | 0.567 | 18.754 |
| CARD11 | Caspase recruitment domain family member 11 | 0.255 | 0 | 4.535 | 0 | 17.767 |
| SH3RF3 | SH3 domain containing ring finger 3 | 0.255 | 0 | 4.535 | 0 | 17.767 |
| LRRC15 | Leucine rich repeat containing 15 | 0.766 | 0.434 | 12.093 | 0.567 | 15.793 |
| POPDC3 | Popeye domain containing 3 | 0.511 | 0 | 7.558 | 0 | 14.806 |
| SEMA5A | Semaphorin 5A | 0.255 | 0 | 3.779 | 0 | 14.806 |
a
Reads per million.
b
With respect to unsorted cells.
c
Gene was not found expressed in unsorted cells, so fold change is undefined.