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| Status |
Public on Dec 03, 2020 |
| Title |
Regulation and Role of Aryl Hydrocarbon Receptor in Human Embryonic Stem Cells and Their Differentiating Counterparts [ChIP-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Aryl hydrocarbon receptor (AHR) is a ligand-activated transcription factor, which mediates the effects of various environmental contaminants, like polycyclic and halogenated aromatic hydrocarbons, including the most potent agonist 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD), in multiple tissues. Recent advances in AHR biology have underlined its importance in cells with high developmental potency, including pluripotent stem cells. Nonetheless, there is little data on AHR expression and its role during the initial stages of stem cell differentiation. The purpose of this study was to investigate the temporal pattern of AHR expression during directed differentiation of human embryonic stem cells (hESC) into neural progenitor, early mesoderm and definitive endoderm cells. Additionally, we studied the effect of AHR agonist 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) on gene expression profile in hESCs and differentiated cells by RNA-seq, accompanied by identification of AHR binding sites by ChIP-seq and epigenetic landscape analysis by ATAC-seq. . We show that AHR is differentially regulated in distinct lineages, provide evidence that TCDD impairs differentiation of hESCs and identify novel potential AHR target genes which expand our understanding on the role of this protein in different cell types.
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| Overall design |
ChIP-seq profiles of hESC H9 cells and H9 derived endoderm and neural progenitor cells pre-treated with DMSO (control) or 10 nM TCDD at the hESC stage in mTESRTM1 medium for 3 days in three biological replicates
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| Contributor(s) |
Teino I, Matvere A, Pook M, Varik I, Pajusaar L, Uudeküll K, Vaher H, Kristjuhan A, Org T, Maimets T |
| Citation(s) |
33260776 |
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| Submission date |
Nov 06, 2020 |
| Last update date |
Dec 05, 2020 |
| Contact name |
Tõnis Org |
| E-mail(s) |
toniso@ut.ee
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| Phone |
372-52-11484
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| Organization name |
University of Tartu
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| Department |
Institute of Molecular and Cell Biology
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| Lab |
Biotechnology
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| Street address |
Riia 23
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| City |
Tartu |
| ZIP/Postal code |
51010 |
| Country |
Estonia |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (24)
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| This SubSeries is part of SuperSeries: |
| GSE160983 |
Regulation and Role of Aryl Hydrocarbon Receptor in Human Embryonic Stem Cells and Their Differentiating Counterparts |
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| Relations |
| BioProject |
PRJNA675067 |
| SRA |
SRP291432 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE160980_RAW.tar |
2.3 Gb |
(http)(custom) |
TAR (of BW, NARROWPEAK) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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