Table 2. Imprinted genes differentially expressed in pluripotent cell lines*.
| Symbol | Annotation | Maternal/paternal | Chr | Enriched | Log ratio difference | p value*** | ||||
|---|---|---|---|---|---|---|---|---|---|---|
| LIF+ | LIF− | RA | LIF+ | LIF− | RA | |||||
| Grb10** | growth factor receptor bound protein 10 | Maternal | 11a2 | ESC | −0.476 | −0.498 | −1.012 | 0.000 | 0.000 | 0.000 |
| Calcr | calcitonin receptor | Maternal | 6a1 | ESC | −0.297 | −0.334 | −0.217 | 0.000 | 0.027 | 0.003 |
| Ins1 | insulin I | Paternal | 19d2 | ESC | −0.038 | −0.103 | −0.205 | 0.144 | 0.008 | 0.000 |
| Igf2r | insulin-like growth factor 2 receptor | Maternal | 17a2 | ESC | 0.067 | −0.027 | −0.376 | 0.053 | 0.599 | 0.000 |
| Slc38a4 | solute carrier family 38, member 4 | Paternal | 15f2 | ESC | 0.040 | −0.095 | −0.210 | 0.321 | 0.089 | 0.000 |
| Pon3 | paraoxonase 3 | Maternal | 6a1 | ESC | −0.029 | −0.017 | −0.200 | 0.332 | 0.821 | 0.001 |
|
| ||||||||||
| Snrpn | small nuclear ribonucleoprotein N | Paternal | 7b5 | EGC | 0.292 | 0.356 | 0.535 | 0.000 | 0.000 | 0.000 |
| U2af1-rs1 | U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 1, related sequence 1 | Paternal | 11a3 | EGC | 0.217 | 0.272 | 0.218 | 0.000 | 0.000 | 0.000 |
| Nnat | neuronatin | Paternal | 2h2 | EGC | 0.240 | 0.203 | 0.283 | 0.001 | 0.042 | 0.025 |
| Kcnq1 | potassium voltage-gated channel, subfamily Q, member 1 | Maternal | 7f5 | EGC | 0.117 | 0.206 | 0.183 | 0.010 | 0.006 | 0.031 |
| H19 | H19 fetal liver mRNA | Maternal | 7f5 | EGC | 0.241 | 0.224 | 0.412 | 0.000 | 0.165 | 0.035 |
| Peg3 | paternally expressed 3 | Paternal | 7a1 | EGC | 0.287 | 0.157 | 0.116 | 0.000 | 0.112 | 0.008 |
| Ascl2 | achaete-scute complex homolog-like 2 (Drosophila) | Maternal | 7f5 | EGC | 0.061 | 0.170 | 0.261 | 0.267 | 0.065 | 0.030 |
|
| ||||||||||
| Peg3 | paternally expressed 3 | Paternal | 7a1 | C57BL/6 | −0.375 | −0.214 | −0.103 | 0.000 | 0.016 | 0.033 |
| Dcn | decorin | Maternal | 10c3 | C57BL/6 | −0.139 | −0.193 | −0.105 | 0.005 | 0.006 | 0.391 |
| Asb4 | ankyrin repeat and SC | Maternal | 6a1 | C57BL/6 | −0.257 | −0.198 | −0.120 | 0.000 | 0.226 | 0.329 |
|
| ||||||||||
| Impact | imprinted and ancient | Paternal | 18a2 | 129 | 0.285 | 0.299 | 0.267 | 0.000 | 0.011 | 0.035 |
| Zfp264 | zinc finger protein 264 | Paternal | 7a1 | 129 | 0.175 | 0.094 | 0.296 | 0.000 | 0.084 | 0.000 |
| Calcr | calcitonin receptor | Maternal | 6a1 | 129 | 0.085 | 0.374 | 0.159 | 0.341 | 0.010 | 0.071 |
| Dlk1 | delta-like 1 homolog (Drosophila) | Paternal | 12f2 | 129 | 0.021 | 0.116 | 0.228 | 0.668 | 0.142 | 0.015 |
| Gtl2 | GTL2, imprinted maternally expressed untranslated mRNA | Maternal | 12f2 | 129 | 0.332 | 0.262 | 0.268 | 0.022 | 0.323 | 0.266 |
*
Genes were differentially expressed (p < 0.05 and >1.5 fold change) at least in one culture condition.
**
Bold face of a gene symbol indicates significant differences (p < 0.05) in all culture conditions.
***
Bold face of p-value indicates a significant difference in expression (p < 0.05).