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| Status |
Public on Aug 18, 2020 |
| Title |
Time series single cell transcriptomics of cardiac inflammation after myocardial infarction in mice |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We performed time-series single-cell RNA-seq analysis of blood CD11b+ cells and of the inflammatory infiltrate in the heart of C57BL/6J male mice in a model of permanent myocardial infarction.
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| Overall design |
Cardiac CD45+ total leukocytes (datasets F8, F9, F11, F12, G1), cardiac CD11b+ myeloid cells (dataset H10), or blood and cardiac CD11b+ cells (Sample C11_2) were extracted from the blood or heart of mice in the steady state and at various time points after myocardial infarction or sham surgery in a murine model of permanent myocardial ischemia induced by ligation of the left descendant coronary artery, and analyzed by single-cell RNA-sequencing. In the H10 dataset, CD11b+ cells were sampled at 1, 3, and 5 days after infarction, labeled with CITE-Seq and hashtag antibodies and pooled for multiplexed analysis. In Sample C11_2, blood and cardiac CD11b+ cells from control animals and mice at 1 and 3 days after sham or myocardial infarction surgery were labeled with CITE-seq and hashtag antibodies and pooled for multiplexed analysis.
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| Contributor(s) |
Vafadarnejad E, Rizzo G, Krampert L, Arampatzi P, Nugroho VA, Schulz D, Roesch M, Zernecke A, Saliba AE, Cochain C |
| Citation(s) |
32811295 |
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| Submission date |
Aug 02, 2019 |
| Last update date |
Jun 17, 2022 |
| Contact name |
Antoine-Emmanuel Saliba |
| E-mail(s) |
emmanuel.saliba@helmholtz-hzi.de
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| Phone |
+49-931-31-81341
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| Organization name |
Helmholtz Institute for RNA-based Infection Research
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| Street address |
Josef-Schneider-Straße 2 / D15
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| City |
Würzburg |
| ZIP/Postal code |
97080 |
| Country |
Germany |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA558375 |
| SRA |
SRP217210 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE135310_RAW.tar |
2.1 Gb |
(http)(custom) |
TAR (of H5, MTX, TSV, TXT) |
| GSE135310_README.txt |
420 b |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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