|
| Status |
Public on Dec 21, 2012 |
| Title |
Transcriptomic analysis of XIST+ and XIST- hES cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: Compare the transcriptome of homogeneous XIST+ and XIST- hES cell populations.
Methods: We isolated homogeneous XIST+ and XIST- cell populations. The XIST+ cells correspond to cells with a XIST cloud and one ATRX pinpoint. The XIST- cells correspond to cells with no XIST cloud and one ATRX pinpoint.
Results: We took advantage of the clonal pattern of X-chromosome inactivation in H9 cells and analyzed the data in an allelic manner. By comparing the RNA-Seq data with known H9 SNPs, we identified genomic positions which were relaxed from XCI in XIST- cells compared to XIST+ cells.
Conclusions: Genic as well as unannotated transcripts are massively relaxed from XCI in H9 cells when XIST expression is lost, however, this reactivation is only partial and a large region around the centromere is protected from relaxation of silencing.
|
| |
|
| Overall design |
Total RNA (rRNA depleted) profiles of XIST+ and XIST- human embryonic stem cells
|
| |
|
| Contributor(s) |
Vallot C, Rougeulle C |
| Citation(s) |
23334669 |
| Submission date |
Jul 30, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Céline Vallot |
| E-mail(s) |
celine.vallot@univ-paris-diderot.fr
|
| Organization name |
CNRS/UMR7216
|
| Street address |
35 rue Hélène Brion
|
| City |
Paris |
| ZIP/Postal code |
75013 |
| Country |
France |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (2) |
|
| Relations |
| BioProject |
PRJNA171584 |
| SRA |
SRP014626 |
