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| Status |
Public on Mar 24, 2016 |
| Title |
Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells [Atad2_ES_RNAseq_BI] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Although the conserved AAA ATPase – bromodomain factor, ATAD2, has been described as a transcriptional co-activator upregulated in many cancers, its function remains poorly understood. Here, using a combination of ChIP-seq, ChIP-proteomics and RNA-seq experiments in embryonic stem cells, we found that Atad2 is an abundant nucleosome-bound protein present on active genes, associated with chromatin remodelling, DNA replication and DNA repair factors. A structural analysis of its bromodomain and subsequent investigations demonstrate that histone acetylation guides ATAD2 to chromatin, resulting in an overall increase of chromatin accessibility and histone dynamics, which is required for the proper activity of the highly expressed gene fraction of the genome. While in exponentially growing cells Atad2 appears dispensable for cell growth, in differentiating ES cells, Atad2 becomes critical in sustaining specific gene expression programs, controlling proliferation and differentiation. Altogether, this work defines Atad2’s function as a facilitator of general chromatin-templated activities such as transcription.
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| Overall design |
We used a siRNA approach to knock-down Atad2 and measure the resulting variations in gene expression by RNA-seq
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| Contributor(s) |
Rousseaux S, Debernardi A, Morozumi Y, Boussouar F, Guardiola P, Gerard M, Gianni D, Schweifer N |
| Citation(s) |
26459632 |
| Submission date |
Jun 26, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Sophie Rousseaux |
| Organization name |
INSERM-UGA
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| Department |
IAB
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| Lab |
U1209
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| Street address |
Bd de la Chantourne
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| City |
La Tronche |
| ZIP/Postal code |
38706 |
| Country |
France |
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| Platforms (1) |
| GPL15103 |
Illumina HiSeq 1000 (Mus musculus) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE70315 |
Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells |
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| Relations |
| BioProject |
PRJNA288301 |
| SRA |
SRP059915 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE70314_Gal474_cuffdiff_sictrl.1_siAtad2.1_gene_differential_expression_testing.txt.gz |
1.8 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal475_cuffdiff_sictrl.1_siAtad2.1_gene_FPKM_tracking.txt.gz |
1.7 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal476_cuffdiff_sictrl.1_siAtad2.1_transcript_differential_expression_testing.txt.gz |
1.7 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal477_cuffdiff_sictrl.1_siAtad2.1_transcript_FPKM_tracking.txt.gz |
1.9 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal485_cuffdiff_sictrl.2_siAtad2.2_gene_differential_expression_testing.txt.gz |
1.8 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal486_cuffdiff_sictrl.2_siAtad2.2_gene_FPKM_tracking.txt.gz |
1.7 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal487_cuffdiff_sictrl.2_siAtad2.2_transcript_differential_expression_testing.txt.gz |
1.7 Mb |
(ftp)(http) |
TXT |
| GSE70314_Gal488_cuffdiff_sictrl.2_siAtad2.2_transcript_FPKM_tracking.txt.gz |
1.9 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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