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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
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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.
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Overall design |
Total RNA (rRNA depleted) profiles of XIST+ and XIST- human embryonic stem cells
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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
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Organization name |
CNRS/UMR7216
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Street address |
35 rue Hélène Brion
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City |
Paris |
ZIP/Postal code |
75013 |
Country |
France |
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Platforms (1) |
GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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Samples (2) |
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Relations |
BioProject |
PRJNA171584 |
SRA |
SRP014626 |