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| Status |
Public on Jun 01, 2024 |
| Title |
d0_untreated_Sample_6539-JL-S1-B_TCTACCATTT-GACTCTCCCG |
| Sample type |
SRA |
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| Source name |
Skeletal Muscle
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| Organism |
Canis lupus familiaris |
| Characteristics |
tissue: Skeletal Muscle
treatment: Untreated
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| Extracted molecule |
total RNA |
| Extraction protocol |
For single-nuclear RNA sequencing, samples were collected from biopsy samples of untreated canine skeletal muscle tissues at 0, 7, and 14 days post volumetric muscle loss (VML) injury. Canine tissues from animals at 0, 7, and 14 days post VML were collected for spatial gene expression profiling. Samples wereflash-frozen, OCT embedded, muscle tissue. Canine tissues were collected in different wound locations (mid or edge) in treated samples. There were a total of 4 replicates for untreated samples, 3 untreated samples at 7 days post injury, 3 untreated samples, and 4 ECM-treated samples at 14 days post injury.
Libraries were constructed according to the manufacturer's instructions for 10X Genomics Visium Spatial gene expression slides and 10X Genomics Single Cell 3' (v3)
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| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
Visium 10X Genomics
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| Data processing |
10X Genomics Space Ranger pipeline and 10X Genomics Cell Ranger pipeline
Assembly: CanFam3.1 v97 genome
Supplementary files format and content: Tab-separated values files and matrix files
Library strategy: Visium Spatial-seq
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| Submission date |
May 03, 2024 |
| Last update date |
Jun 01, 2024 |
| Contact name |
Carlos Andres Aguilar |
| E-mail(s) |
caguilar@umich.edu
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| Phone |
734-764-8557
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| Organization name |
University of Michigan
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| Department |
Biomedical Engineering
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| Lab |
Aguilar (NOBEL) Lab
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| Street address |
2800 Plymouth Rd.
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| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109 |
| Country |
USA |
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| Platform ID |
GPL25760 |
| Series (1) |
| GSE266585 |
Deconstruction of cellular dynamics after treatment of volumetric muscle loss injury with extracellular matrix |
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| Relations |
| BioSample |
SAMN41193811 |
| SRA |
SRX24449806 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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