|
| Status |
Public on Dec 01, 2023 |
| Title |
CON_THREE_SOL |
| Sample type |
SRA |
| |
|
| Source name |
Soleus
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Skeletal Muscle
conditions: Control
age: 2.5mo
|
| Treatment protocol |
Adult mice (>2 months) were administered doxycycline to overexpress myc overnight and were harvested 12 hours after doxycycline was removed. Age-matched mice served as controls.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Soleus muscles were flash frozen in liquid nitrogen and RNA was isolated using TRIzol and the Zymo MicroPrep Kit and prepared for RNA-sequencing
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Sequenced reads were mapped to mm10 mouse genome assembly using STAR 2.7.8a with default parameters.
Aligned reads were quantified for gene counts, filtered to exclude genes with high noise or a maximum count of less than or equal to 50.
The filtered counts were median ratio normalized and tested for statistical significance using DESeq2.
All steps were performed using the Partek® Flow® Software.
Assembly: mm39
Supplementary files format and content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jan 06, 2023 |
| Last update date |
Dec 01, 2023 |
| Contact name |
Kevin Murach |
| E-mail(s) |
kmurach@uark.edu
|
| Organization name |
University of Arkansas
|
| Department |
Health, Human Performance, and Recreation
|
| Lab |
Molecular Muscle Mass Regulation Laboratory
|
| Street address |
155 Stadium Dr.
|
| City |
Fayetteville |
| State/province |
AR |
| ZIP/Postal code |
72701 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE222329 |
A Molecular Signature Defining Exercise Adaptation and In Vivo Reprogramming in Skeletal Muscle [RNA-seq] |
| GSE222335 |
A Molecular Signature Defining Exercise Adaptation and In Vivo Reprogramming in Skeletal Muscle |
|
| Relations |
| BioSample |
SAMN32616839 |
| SRA |
SRX18955264 |
