Table 1.
Genomic SNP genotyping and polymorphic cDNA analysis of a subset of X-linked genes in HSF6, H9, and H7 hESCs
| Gene name | SNP ID | Genotyping | Allelic expression in XIST+ hESCs | Allelic expression in XIST– hESCs | Genotyping (XO) |
|---|---|---|---|---|---|
| H9 | |||||
| DMD | rs228406 | C/T | T (10T) | C/T (6C/4T) | T |
| GK | rs6526997 | A/G | A (8A) | A/G (8A/3G) | A |
| HS6ST2 | rs5933220 | T/C | C | C | C |
| FGF13 | rs2267628 | T/C | T | T | T |
| AR | rs4827545 | A/C | A | A | A |
| UIP1 | rs933190 | A/G | A | A | A |
| FHL | rs7061270 | C/T | T | T | T |
| WDR44 | rs10521584 | C/T | C | C | C |
| HSF6 | |||||
| CXORF22 | rs6632450 | C/T | T (9T) | C/T (6T/4G) | |
| CXORF12 | rs7350355 | A/G | A (10A) | A/G (14A/6G) | |
| AFF2 | rs6641482 | A/G | A | A | |
| ATP7A | rs2227291 | C/G | C | C | |
| WDR44 | rs10521584 | C/T | C | C | |
| FHL1 | rs9018 | A/G | G | G | |
| UIP1 | rs933190 | A/G | A | A or A/G* | |
| H7 | |||||
| POLA1 | rs929313 | A/C | A/C (7C/3A) | ||
| AFF2 | rs6641482 | A/G | G | ||
| FHL | rs7061270 | C/T | T | ||
| FMR1 | rs29282 | C/T | T |
Genes in red show reactivation of the second allele in hESCs without XCI markers, and genes in black are monoallelic expressed in both XIST+ and XIST− hESCs.
*Note that UIP1 is observed either monoallelic or biallelic expressed in different batches of XIST– HSF6 subcultures.