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Sample GSM7776318 Query DataSets for GSM7776318
Status Public on Feb 26, 2024
Title D17-20.Biopsy_127
Sample type SRA
 
Source name Muscle
Organism Canis lupus
Characteristics tissue: Muscle
cell line: all cell types in muscle
cell type: all cell types in muscle
treatment: No treatment (default healing)
Extracted molecule total RNA
Extraction protocol Total RNAs were isolated from tissues using trizol (ThermoFisher #15596018) and chloroform phase separations followed by the RNeasy mini protocol (Qiagen #74106) with optional on-column DNase digestion (Qiagen #79254).
One hundred nanograms of total RNA was used to prepare sequencing libraries using the LM-Seq (Ligation Mediated Sequencing) protocol (Hou, Z. et al. A cost-effective RNA sequencing protocol for large-scale gene expression studies. Sci Rep 5, 9570 (2015).)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description Post-injury Day:42Wound Zone:Intermediate
Data processing FASTQ files were generated by CASAVA (v1.8.2).
The gene expected read counts and TPMs were estimated by RSEM (v1.2.3)
TPMs were median-by-ratio normalized
Assembly: CanFam3.1
Supplementary files format and content: ExpectedCounts.txt.gz: Text file, mapping read counts
Supplementary files format and content: MedianNorm_TPMs.txt.gz: text file, normalized TPM values
 
Submission date Sep 12, 2023
Last update date Feb 26, 2024
Contact name Peng Jiang
E-mail(s) p.jiang@csuohio.edu
Organization name Cleveland State University
Street address 2121 Euclid Ave
City Cleveland
State/province OH
ZIP/Postal code 44115
Country USA
 
Platform ID GPL33062
Series (1)
GSE242973 Unraveling the Complex Relationship Between mRNA and Protein Abundance: A Machine Learning-Based Approach for Imputing Protein Levels from RNA-seq Data
Relations
BioSample SAMN37361786
SRA SRX21758732

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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