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Series GSE138826 Query DataSets for GSE138826
Status Public on Mar 25, 2020
Title 10X skeletal muscle regeneration scRNA-seq
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
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.
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.
Contributor(s) Kuang S, Oprescu SN
Citation(s) 32248062
Submission date Oct 14, 2019
Last update date Mar 09, 2023
Contact name Shihuan Kuang
Organization name Purdue University
Street address 901 W State St
City West Lafayette
State/province IN
ZIP/Postal code 47907
Country USA
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (7)
GSM4120117 042201_non-inj
GSM4120118 042202_0-5dpi
GSM4120119 042203_2-0dpi
BioProject PRJNA577458
SRA SRP225546

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
GSE138826_expression_matrix.txt.gz 148.3 Mb (ftp)(http) TXT
GSE138826_regen_data.rds.gz 492.6 Mb (ftp)(http) RDS
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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