Table 2.
Genes significantly up and downregulated in multiple T cell lineages upon the deletion of Snai2 and Snai3. Mean ± SEM FPKM values for each analyzed gene are indicated for both WT and cDKO versions of all 3 cell types. Grey shaded boxes indicate statistically significant differences (p < 0.05) between WT and cDKO samples for a given gene and lineage. Bolded gene names indicate those with a previously published immunological association. N/A = not applicable; N.D. = not detectable
| Category | Lineages | Gene | WT CD8α+ |
cDKO CD8α+ |
WT TConv | cDKO TConv | WT TReg | cDKO TReg |
|---|---|---|---|---|---|---|---|---|
|
Upregulated
in cDKO |
CD8α+ and TConv | Sva | 0.001 ±0.000 |
5.568 ±0.631 |
0.031 ±0.030 |
5.578 ±0.548 |
0.001 ±0.000 |
3.049 ±1.524 |
| Spaca1 | 0.653 ±0.285 |
1.893 ±0.420 |
0.816 ±0.348 |
2.130 ±0.231 |
0.473 ±0.279 |
1.308 ±0.537 |
||
| Srp54b | 0.297 ±0.020 |
0.658 ±0.070 |
0.396 ±0.062 |
0.841 ±0.122 |
0.698 ±0.129 |
0.065 ±0.034 |
||
| CD8α+ and TReg |
N/A | N/A | N/A | N/A | N/A | N/A | N/A | |
| TConv and TReg | N/A | N/A | N/A | N/A | N/A | N/A | N/A | |
| CD8α+, TConv and TReg |
Gm9522 | 1.826 ±0.499 |
6.032 ±1.220 |
2.265 ±0.244 |
7.323 ±1.213 |
3.442 ±0.987 |
9.873 ±1.122 |
|
|
Downregulated in
cDKO |
CD8α+ and TConv |
Gm15819 | 3.737 ±0.085 |
1.301 ±0.206 |
3.236 ±0.168 |
1.351 ±0.269 |
2.362 ±0.813 |
1.147 ±0.573 |
| Rapgefl1 | 0.141 ±0.041 |
0.019 ±0.015 |
0.112 ±0.019 |
0.043 ±0.018 |
N.D. | N.D. | ||
| CD8α+ and TReg |
Cables1 | 0.347 ±0.043 |
0.172 ±0.014 |
N.D. | N.D. | 1.039 ±0.244 |
0.032 ±0.022 |
|
| Ube2l6 | 1.042 ±0.154 |
0.509 ±0.112 |
2.004 ±0.394 |
1.100 ±0.499 |
9.394 ±0.664 |
4.128 ±1.202 |
||
| Zfp69 | 3.988 ±0.785 |
1.751 ±0.049 |
3.824 ±0.887 |
1.809 ±0.205 |
4.061 ±0.565 |
0.977 ±0.565 |
||
| Gp49a | 2.829 ±0.572 |
1.138 ±0.248 |
1.551 ±0.717 |
0.649 ±0.352 |
10.575 ±1.775 |
2.340 ±0.671 |
||
| Map2 | 0.084 ±0.018 |
0.029 ±0.007 |
0.243 ±0.077 |
0.068 ±0.029 |
0.811 ±0.153 |
0.259 ±0.112 |
||
| TConv and TReg | Mir5107 | N.D. | N.D. | 29.253 ±4.359 |
14.401 ±2.203 |
39.095 ±4.858 |
2.185 ±2.184 |
|
| Serpinc1 | 0.309 ±0.097 |
0.336 ±0.091 |
0.718 ±0.100 |
0.341 ±0.035 |
3.624 ±0.116 |
1.697 ±0.796 |
||
| Themis2 | 4.456 ±0.441 |
3.146 ±0.722 |
2.311 ±0.165 |
1.017 ±0.066 |
1.768 ±0.194 |
0.656 ±0.350 |
||
| Phox2a | 0.119 ±0.083 |
0.015 ±0.014 |
0.343 ±0.055 |
0.139 ±0.053 |
0.786 ±0.075 |
0.292 ±0.162 |
||
| Mlkl | 0.804 ±0.201 |
0.609 ±0.198 |
0.571 ±0.109 |
0.215 ±0.057 |
4.278 ±0.586 |
1.924 ±0.638 |
||
| March1 | 0.171 ±0.039 |
0.145 ±0.031 |
0.417 ±0.068 |
0.153 ±0.021 |
0.179 ±0.042 |
0.0130 ±0.012 |
||
| Penk | 0.489 ±0.266 |
0.074 ±0.062 |
1.951 ±0.552 |
0.396 ±0.111 |
45.828 ±2.334 |
19.140 ±4.292 |
||
| CD8α+, TConv and TReg |
Rell1 | 3.731 ±0.281 |
1.797 ±0.164 |
4.062 ±0.353 |
1.988 ±0.139 |
3.969 ±0.334 |
1.711 ±0.169 |
|
| Col27a1 | 0.085 ±0.015 |
0.035 ±0.006 |
0.144 ±0.022 |
0.058 ±0.006 |
0.454 ±0.037 |
0.088 ±0.073 |
||
| Gm11212 | 1.452 ±0.082 |
0.582 ±0.100 |
1.740 ±0.446 |
0.546 ±0.193 |
0.686 ±0.198 |
0.001 ±0.000 |
||
| Snai3 | 7.005 ±0.370 |
0.030 ±0.018 |
0.787 ±0.095 |
0.034 ±0.021 |
0.733 ±0.118 |
0.041 ±0.040 |