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Series GSE136762 Query DataSets for GSE136762
Status Public on Aug 28, 2023
Title Single cell RNAseq profiling of Tbx1 function in adult post myocardial infarction hearts [scRNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Post-myocardial infarction (Post-MI) heart failure is an unanswered clinical challenge. Current immunological intervention trials to reduce MI damage are unsatisfactory. Thus a thorough understanding of post-MI immune response is imperative. Tbx1, the major 22q11.2 deletion syndrome (22q11.2DS) disease gene, reactivated in cardiac lymphatic endothelial cells (LECs) to promote post-MI repair. Endothelial deletion of Tbx1 deteriorated post-MI cardiac function through a dual approach, impaired lymphangiogenesis and weakened immunosuppression. To characterize cell autonous function of Tbx1 in endothelial population and cell non-autonous effect in immune cells, we set to performed scRNA-seq on Ctrl (Tbx1flox/flox) and Tbx1cko (Fabp4-Cre;Tbx1flox/flox) hearts. The dataset is comprised of total 55,106 single cells transcriptomes. We identified eight principal non-myocyte types with their known markers, including CD31-expressing vascular endothelial cell (VEC), LEC, pericyte, as well as CD45-expressing monocyte/macrophage, dendritic cell (DC), neutrophil, T/innate lymphoid cell (ILC), and B cell. Interestingly, we found that the relative percentage of monocyte/macrophage population, which is most abundant among all immune cells, was significantly decreased in Tbx1cko hearts, whereas T/ILC population was increased. Taken together, single cell transcriptomic analyses suggest a potential cell non-autonomous effect that Tbx1 deficiency in endothelium may cause imbalance in immune response. 
Overall design We set to performed scRNA-seq on enriched CD31+ endothelial cells and CD45+ leucocytes from Ctrl and Tbx1cko hearts. We collected samples at 4, 5, 6, and 7 dpMI, reasoning that the the most significant cellular and transcriptional distincts between Ctrl and Tbx1cko would occur during the initial 4-day window of Tbx1 reactivation.
Contributor(s) Wang W, Li X, Zhang M, Zhang Z
Citation(s) 37625409
Submission date Sep 03, 2019
Last update date Aug 29, 2023
Contact name Min Zhang
Organization name Shanghai Jiao Tong University School of Medicine
Department Shanghai Children's Medical Center
Lab Zhen Zhang
Street address 1678 Dongfang Road
City Shanghai
State/province Shanghai
ZIP/Postal code 200127
Country China
Platforms (2)
GPL23479 BGISEQ-500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (8)
GSM4057532 Ctrl_4dpMI
GSM4057533 Tbx1cko_4dpMI
GSM4057534 Ctrl_5dpMI
This SubSeries is part of SuperSeries:
GSE137064 Tbx1 promotes neo-lymphangiogenesis and constraints the immune response to facilitate repair.
BioProject PRJNA563619
SRA SRP220124

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE136762_RAW.tar 224.7 Mb (http)(custom) TAR (of H5)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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