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Series GSE21978 Query DataSets for GSE21978
Status Public on Jun 13, 2010
Title A global network of transcription factors, involving E2A, EBF1 and FOXO1, that orchestrates the B cell fate
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
Summary It is now established that the transcription factors E2A, EBF1 and Foxo 1 play critical roles in B cell development. Here we show that E2A and EBF1 bound regulatory elements present in the Foxo1 locus. E2A and EBF1 as well as E2A and Foxo1, in turn, were wired together by a vast spectrum of cis-regulatory codes. These associations were dynamic during developmental progression. Occupancy by the E2A isoform, E47, directly elevated the abundance as well as the pattern of histone H3K4 monomethylation across putative enhancer regions. Finally, the pro-B cell epigenome was divided into clusters of loci that show E2A, EBF and Foxo1 occupancy. From this analysis a global network consisting of transcriptional regulators, signaling and survival factors, was constructed that we propose orchestrates the B cell fate.
Overall design ChIP-Seq and gene expression profiling was performed in a variety of genetically modified primary B cell populations and cell lines approximating developmental stages of B cell development.
Contributor(s) Lin YC, Jhunjhunwala S, Benner C, Heinz S, Welinder E, Mansson R, Sigvardsson M, Hagman J, Espinoza CA, Dutkowski J, Ideker T, Glass CK, Murre C
Citation(s) 20543837
Submission date May 24, 2010
Last update date May 15, 2019
Contact name Christopher Benner
Organization name University of California, San Diego (UCSD)
Department Medicine
Street address 9500 Gilman Dr. MC 0640
City La Jolla
State/province California
ZIP/Postal code 92093-0640
Country USA
Platforms (3)
GPL7202 Agilent-014868 Whole Mouse Genome Microarray 4x44K G4122F (Probe Name version)
GPL9185 Illumina Genome Analyzer (Mus musculus)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
Samples (30)
GSM546511 E2A-/- pre-pro-B cell expression rep1
GSM546512 RAG1-/- pro-B cell expression rep1
GSM546513 EBF-/- pre-pro-B cell expression rep1
SRA SRP002585
BioProject PRJNA127185

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Supplementary file Size Download File type/resource
GSE21978_RAW.tar 2.8 Gb (http)(custom) TAR (of BED, FA, TXT)
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Processed data included within Sample table
Raw data are available in SRA
Processed data provided as supplementary file

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