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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Apr 01, 2015 |
| Title |
Transcriptional profiling of mouse B cell terminal differentiation defines a signature for antibody-secreting plasma cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Upon encounter with antigen, mature B cells undergo complex changes in their physiological state and anatomical localization, and initiate a differentiation process that ultimately produces antibody-secreting cells (ASCs), a major effector population of the immune system. To better characterize this process we have defined the transcriptome of all stages of B cell terminal differentiation by performing a large scale RNA-seq experiment. This analysis provides a molecular signature of ASC populations that highlights the stark transcriptional divide between B cells and plasma cells, and also enables the demarcation ASCs based on location, cell cycle status and maturity. The gene expression changes strongly correlated with cell division history and the acquisition of permissive histone modifications and were clearly evident in the small subset of regulatory genes containing super-enhancers. These findings highlight the core transcriptional program that guides B cell terminal differentiation and the production of antibody, essential processes in the immune response.
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| Overall design |
Transcriptional profiling of ex vivo and in vitro B cell and plasma cell populations in mice using RNA sequencing
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| Contributor(s) |
Shi W, Liao Y, Willis SN, Tarlinton DM, Taubenheim N, Smyth GK, Hodgkin PD, Nutt SL, Corcoran LM |
| Citation(s) |
25894659 |
| Submission date |
Aug 29, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Wei Shi |
| E-mail(s) |
Wei.Shi@onjcri.org.au
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| Organization name |
Olivia Newton-John Cancer Research Institute
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| Street address |
145 Studley Road
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| City |
Heidelberg |
| State/province |
Victoria |
| ZIP/Postal code |
3084 |
| Country |
Australia |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (31)
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| GSM1493789 |
Peritoneal B1 cells (B1) rep2 |
| GSM1493790 |
Marginal zone B cells (MZB) rep1 |
| GSM1493791 |
Marginal zone B cells (MZB) rep2 |
| GSM1493792 |
Germinal center B cells (GCB) rep1 |
| GSM1493793 |
Germinal center B cells (GCB) rep2 |
| GSM1493794 |
Splenic plasmablasts (SplPB) rep1 |
| GSM1493795 |
Splenic plasma cells (SplPC) rep1 |
| GSM1493796 |
Splenic plasma cells (SplPC) rep2 |
| GSM1493797 |
Splenic plasma cells (SplPC) rep3 |
| GSM1493798 |
Bone marrow plasma cells (BMPC) rep1 |
| GSM1493799 |
Day 3 LPS stimulated B cells, B220+, Syndecan1-, Blimp1-GFP- (LPS blasts) rep1 |
| GSM1493800 |
Day 3 LPS stimulated B cells, B220+, Syndecan1-, Blimp1-GFP+ (LPS Syn-PB) rep1 |
| GSM1493801 |
Day 3 LPS stimulated B cells, B220+, Syndecan1-, Blimp1-GFP+ (LPS Syn-PB) rep2 |
| GSM1493802 |
Day 3 LPS stimulated B cells, B220+, Syndecan1+, Blimp1-GFP+ (LPS PB) rep1 |
| GSM1493803 |
Day 3 LPS stimulated B cells, B220+, Syndecan1+, Blimp1-GFP+ (LPS PB) rep2 |
| GSM1493804 |
Day 2 CD40L+IL4 stimulated B cells, CD19+, B220hi, Syndecan1- (40/4 blasts) rep1 |
| GSM1493805 |
Day 2 CD40L+IL4 stimulated B cells, CD19+, B220hi, Syndecan1- (40/4 blasts) rep2 |
| GSM1493806 |
Small resting B cells from Blimp1-GFP mice (Unstim) rep1 |
| GSM1493807 |
B cells stimulated for 24h with CD40L+IL4, Small, B220+, Syndecan1- (Div 0) rep1 |
| GSM1493808 |
Day 4 CD40L+IL4+IL5 stimulated cells, Small, B220+, Syndecan1-, CTV+ cells, sorted by division 1 (Div 1) rep1 |
| GSM1493809 |
Day 4 CD40L+IL4+IL5 stimulated cells, Small, B220+, Syndecan1-, CTV+ cells, sorted by division 3 (Div 3) rep1 |
| GSM1493810 |
Day 4 CD40L+IL4+IL5 stimulated cells, Small, B220+, Syndecan1-, CTV+ cells, sorted by division 5 (Div 5) rep1 |
| GSM1493811 |
Day 4 CD40L+IL4+IL5 stimulated cells, Small, B220+, Syndecan1-, CTV+ cells, sorted by division 7 (Div 7) rep1 |
| GSM1493812 |
Day 4 CD40L+IL4 stimulated cells, Syndecan1+ (40/4 PB) rep1 |
| GSM1493813 |
Germinal center-like B lymphoma cell line (A20) |
| GSM1493814 |
Plasmacytoma cell line (MPC11) |
| GSM2104400 |
Day 5 CD40L+IL4+IL5 stimulated cells, Syndecan1+ (40/4/5 PB) rep1 |
| GSM2104401 |
Day 5 CD40L+IL4+IL5 stimulated cells, Syndecan1+ (40/4/5 PB) rep2 |
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| Relations |
| BioProject |
PRJNA259862 |
| SRA |
SRP045896 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE60927_RAW.tar |
6.6 Mb |
(http)(custom) |
TAR (of TXT) |
| GSE60927_Raw_counts.txt.gz |
1.1 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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