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Status |
Public on Oct 07, 2018 |
Title |
Global organization of the B cell genome by the transcription factor Pax5 [Hi-C] |
Organism |
Mus musculus |
Experiment type |
Other
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Summary |
We used genome-wide in situ Hi-C to show that different immune cell populations display distinct chromatin architecture and that the transcription factor Paired box 5 (Pax5) is critical for the lineage-specific architecture of B cells.
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Overall design |
Hi-C was undertaken for mouse CD4+ T cells, transitional & marginal zone (Tr/MZ) B cells, granulocytes, LSKs, MEFs, pro-B cells, Pax5-/- pro-B cells, follicular B cells, activated B cells and plasmablasts. Also used was a Pax5-/- pro-B cell line with a Pax5:ER fusion construct allowing Pax5 to be reintroduced to the nucleus. The Pax5:ER cells were either untreated, treated with b-estradiol to reintroduce Pax5, or treated with both b-estradiol and a-amanitin to reintroduce Pax5 but prevent further transcription. Two biological replicates were conducted for each cell type and each treatment condition, except for pro-B cells and Pax5-/- prob-B cells, for which three replicates were performed.
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Contributor(s) |
Johanson TM, Coughlan HD, Smyth GK |
Citation(s) |
30323344, 33637722 |
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Submission date |
May 22, 2017 |
Last update date |
Jul 25, 2021 |
Contact name |
Rhys Allan |
E-mail(s) |
rallan@wehi.edu.au
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Organization name |
The Walter and Eliza Hall Institute of Medical Research
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Department |
Molecular Immunology
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Lab |
Allan Laboratory
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Street address |
1G Royal Parade
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City |
Parkville |
State/province |
Victoria |
ZIP/Postal code |
3052 |
Country |
Australia |
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Platforms (1) |
GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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Samples (30)
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This SubSeries is part of SuperSeries: |
GSE99163 |
Global organization of the B cell genome by the transcription factor Pax5 |
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Relations |
BioProject |
PRJNA387447 |
SRA |
SRP107774 |
Supplementary file |
Size |
Download |
File type/resource |
GSE99151_GenomicRegions.bed.gz |
372.2 Kb |
(ftp)(http) |
BED |
GSE99151_RAW.tar |
4.3 Gb |
(http)(custom) |
TAR (of MTX) |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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