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Series GSE38046 Query DataSets for GSE38046
Status Public on Jun 14, 2012
Title The B cell identity factor Pax5 regulates distinct transcriptional programs in early and late B lymphopoiesis
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Pax5 controls the identity and development of B cells by repressing lineage-inappropriate genes and activating B-cell-specific genes. Here, we used genome-wide approaches to identify Pax5 target genes in pro-B and mature B cells. In these cell types, Pax5 bound to 40% of the cis- regulatory elements defined by mapping Dnase I hypersensitive (DHS) sites, transcription start sites and histone modifications. Although Pax5 bound to 8,000 target genes, it regulated only 4% of them in pro-B and mature B cells by inducing enhancers at activated genes and eliminating DHS sites at repressed genes. Pax5-regulated genes in pro-B cells account for 23% of all expression changes occurring between common lymphoid progenitors and committed pro-B cells, which identifies Pax5 as an important regulator of this developmental transition. Regulated Pax5 target genes minimally overlap in pro-B and mature B cells, which reflects massive expression changes between these cell types. Hence, Pax5 controls B cell identity and function by regulating distinct target genes in early and late B lymphopoiesis.
Overall design 44 samples (16 RNA-seq, 15 ChIP-seq, 6 DHS-seq, 5 Bio-ChIP-seq, 2 CAGE-seq). All but four samples in in 2 biological replicates (8819, 8275, 8095, 8666). WT and experimental samples are provided.
Contributor(s) Revilla-i-Domingo R, Bilic I, Vilagos B, Tagoh H, Ebert A, Tamir I, Smeenk L, Sommer A, Jaritz M, Trupke J
Citation(s) 22669466
Submission date May 18, 2012
Last update date May 15, 2019
Contact name Meinrad Busslinger
Phone 00431-79730
Organization name Instutute of Molecular Pathology
Street address Dr. Bohrgasse 7
City Vienna
ZIP/Postal code 1030
Country Austria
Platforms (1)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (76)
GSM932899 RNA-seq ALP [8485]
GSM932900 RNA-seq ALP [8558]
GSM932901 RNA-seq BLP [8486]
BioProject PRJNA167176
SRA SRP013275

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Supplementary file Size Download File type/resource
GSE38046_RAW.tar 3.2 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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