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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 30, 2022 |
| Title |
Rabbit SSP, repair only treated, short term 1 |
| Sample type |
SRA |
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| Source name |
supraspinatus muscle
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| Organism |
Oryctolagus cuniculus |
| Characteristics |
tissue: supraspinatus muscle
treatment: repair only
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extarction was are performed by comercial lab BGI
RNA libraries were constructed by comercial lab BGI
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
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| Data processing |
usegalaxy.eu pipeline
Use RNA-STAR for Gapped-read mapper for RNA-seq data ( input 2 pair-end raw files per sample for 2 week samples, single end files for 12 week samples)
Use feature to measure gene expression in RNA-Seq experiments from BAM files ( generated from RNA-Star)
Use edgeR to perform differential expression of count data
Assembly: OryCun2.0
Supplementary files format and content: tabular files include normalized counted reads, per gene for each sample
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| Submission date |
Dec 19, 2022 |
| Last update date |
Dec 30, 2022 |
| Contact name |
Jeffrey Wolchok |
| E-mail(s) |
jwolchok@uark.edu
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| Organization name |
University of Arkansas
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| Street address |
1 University of Arkansas
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| City |
Fayetteville |
| ZIP/Postal code |
72701 |
| Country |
USA |
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| Platform ID |
GPL28431 |
| Series (1) |
| GSE221331 |
Delivery of a tissue derived extracellular matrix gel modulates early fibro-adipogenic cell behavior and improves recovery following both acute and chronic disuse muscle injury. |
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| Relations |
| BioSample |
SAMN32312761 |
| SRA |
SRX18772316 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6858703_RI1LD_rep.tab.gz |
102.2 Kb |
(ftp)(http) |
TAB |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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