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Series GSE76586 Query DataSets for GSE76586
Status Public on Sep 16, 2016
Title The control of rRNA synthesis during the directed differentiation of human embryonic stem cells precedes heterochromatin formation.
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Third-party reanalysis
Summary It has become increasingly clear that proper cellular control of pluripotency and differentiation is related to the regulation of rRNA synthesis. To further our understanding of the role that the regulation of rRNA synthesis has on pluripotency we monitored the reduction of rRNA synthesis after the induction of endoderm-specific gene expression in human embryonic stem cells (hESCs) using a brief Activin A treatment. We discovered that the reduction in rRNA synthesis during directed differentiation is rapid (within 6 hours of Activin A treatment), correlates with a reduction in the binding of UBTF, and precedes heterochromatin formation throughout the rRNA gene. The loss of pluripotency and the induction of lineage specific gene expression markers can be induced by reducing rRNA synthesis directly with the Pol I inhibitor, CX-5461. Activin A and CX-5461 both appear to reduce pluripotency and alter lineage-specific transcription, but likely do so via distinct mechanisms.
Overall design UBF Binding by ChIP-seq in untreated and Activin A treated H9 hESCS. mRNA expression level by mRNA-seq in untreated, Activin A treated, and CX-5461 treated H9 hESCs
Contributor(s) Giles KE, Woolnough JL
Citation(s) 27299313
Submission date Jan 06, 2016
Last update date May 15, 2019
Contact name Jessica L Woolnough
Organization name Brigham and Women's Hospital
Department Genetics
Street address 77 Avenue Louis Pasteur
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
Platforms (2)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (21)
GSM2028274 ChIP-seq_UBTF_hESC
GSM2028275 ChIP-seq_UBTF_6hr_ActivinA
GSM2028276 ChIP-seq_IgG_hESC
Reanalysis of GSM1006724
Reanalysis of GSM1006725
Reanalysis of GSM1006726
Reanalysis of GSM1006727
BioProject PRJNA308103
SRA SRP068151

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Supplementary file Size Download File type/resource
GSE76586_RAW.tar 825.8 Mb (http)(custom) TAR (of BED)
GSE76586_S1SupportingInfo.xlsx.gz 22.2 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Processed data provided as supplementary file
Processed data are available on Series record
Raw data are available in SRA

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