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Series GSE70314 Query DataSets for GSE70314
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
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.
Overall design We used a siRNA approach to knock-down Atad2 and measure the resulting variations in gene expression by RNA-seq
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
Department IAB
Lab U1209
Street address Bd de la Chantourne
City La Tronche
ZIP/Postal code 38706
Country France
Platforms (1)
GPL15103 Illumina HiSeq 1000 (Mus musculus)
Samples (4)
GSM1723639 ES si- (1)
GSM1723640 ES si- (2)
GSM1723641 ES siATAD2 (1)
This SubSeries is part of SuperSeries:
GSE70315 Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells
BioProject PRJNA288301
SRA SRP059915

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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
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