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| Status |
Public on Mar 25, 2020 |
| Title |
10X skeletal muscle regeneration scRNA-seq |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Single-cell RNA sequencing of cells dissociated from skeletal muscle at discrete regeneration timepoints to reveal transcriptional identities of contributors to skeletal muscle regeneration.
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| Overall design |
Tibialis anterior muscle from C5Bl6 WT male mice were injected with cardiotoxin to induce muscle injury and collected at at 0.5, 2, 3.5, 5, 10, 21 days post injury and a non-injured sample. Muscle was digested with collagenase and dispase to dissociate single cells, stained with a cell viability marker and subjected to FACS to generate single cell suspensions. Single cell suspensions were loaded onto the 10X Genomics Platform and processed according to the manufacturer's instructions. Each sample is an individual time point, n=3 male mice combined per time point.
The regen_data.rds file is list of two annotated data frames, of which each item contains the merged dataset with all cells from all timepoints.
Item [1] which contains the RNA counts while item [2] contains the SCT normalized values. Columns are the samples, rows and the gene values and the metadata is structures accordingly.
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| Contributor(s) |
Kuang S, Oprescu SN |
| Citation(s) |
32248062 |
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| Submission date |
Oct 14, 2019 |
| Last update date |
Mar 09, 2023 |
| Contact name |
Shihuan Kuang |
| E-mail(s) |
[email protected]
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| Organization name |
Purdue University
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| Street address |
901 W State St
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| City |
West Lafayette |
| State/province |
IN |
| ZIP/Postal code |
47907 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA577458 |
| SRA |
SRP225546 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE138826_expression_matrix.txt.gz |
148.3 Mb |
(ftp)(http) |
TXT |
| GSE138826_regen_data.rds.gz |
492.6 Mb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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