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Series GSE66978 Query DataSets for GSE66978
Status Public on May 15, 2015
Title Brg1 activates enhancer repertoires to establish B cell identity and modulate cell growth
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Early B cell development is orchestrated by the combined activities of the transcriptional regulators E2A, EBF1, Foxo1 and Ikaros. However, how the genome-wide binding patterns of these regulators are modulated during B-lineage development remains to be determined. Here, we found that in lymphoid progenitors the chromatin remodeler Brg1 specified the B cell fate. In committed pro-B cells Brg1 regulated Igh locus contraction and controlled c-Myc expression to modulate the expression of genes that regulate ribosome biogenesis. In committed pro-B cells Brg1 also suppressed a pre-B lineage-specific pattern of gene expression. Finally, we found that Brg1 acted mechanistically to establish B cell fate and modulate cell growth by facilitating access of lineage-specific transcription factors to poised enhancer repertoires.
Overall design 8 ATAC-Seq samples from sorted ALP and BLP (duplicates, control and Brg1-deleted), 4 ATAC-Seq samples from cultured pro-B cells (duplicates, control and Brg1-deleted), 2 Ikaros ChIP-seq samples (performed in Rag1-/- pro-B cells and in E2A-/- pre-pro-B cells), 1 Brg1 ChIP-seq sample and accompanying Input sample (both in Rag1-/- pro-B cells), 4 RNA-Seq samples from cultured pro-B cells (duplicates, control and Brg1-deleted), 6 RNA-Seq samples from cultured Rag1-/- pro-B cells (triplicates, control and Brg1-knock down).
Contributor(s) Bossen C, Murre CS, Chang AN, Mansson R, Rodewald H, Murre C
Citation(s) 25985234
Submission date Mar 17, 2015
Last update date May 15, 2019
Contact name Claudia Bossen
Organization name University Hospital Freiburg (D)
Department Center for Chronic Immunodeficiency
Lab Claudia Bossen
Street address Breisacher Strasse 115
City Freiburg
ZIP/Postal code 79106
Country Germany
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (26)
GSM1635399 ATAC ALP Ctrl 1
GSM1635400 ATAC BLP Ctrl 1
GSM1635401 ATAC ALP ko 1
BioProject PRJNA278629
SRA SRP056238

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Supplementary file Size Download File type/resource
GSE66978_ALP-ctrl-all.ucsc.bedGraph.gz 78.3 Mb (ftp)(http) BEDGRAPH
GSE66978_ALP-ko-all.ucsc.bedGraph.gz 82.2 Mb (ftp)(http) BEDGRAPH
GSE66978_BLP-ctrl-all.ucsc.bedGraph.gz 77.2 Mb (ftp)(http) BEDGRAPH
GSE66978_BLP-ko-all.ucsc.bedGraph.gz 81.6 Mb (ftp)(http) BEDGRAPH
GSE66978_ProB-ctrl-all.ucsc.bedGraph.gz 81.3 Mb (ftp)(http) BEDGRAPH
GSE66978_ProB-ko-all.ucsc.bedGraph.gz 78.7 Mb (ftp)(http) BEDGRAPH
GSE66978_ProB_Brg1ko_vs_ProB_ctrl.txt.gz 1.0 Mb (ftp)(http) TXT
GSE66978_RAW.tar 209.3 Mb (http)(custom) TAR (of BEDGRAPH)
GSE66978_Rag1ko_Brg1kd_vs_Rag1ko_ctrl.txt.gz 1.0 Mb (ftp)(http) TXT
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Processed data are available on Series record
Processed data provided as supplementary file

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