|
| Status |
Public on Sep 05, 2019 |
| Title |
Young-TA-rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Skeletal muscle
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: TA muscle
age: 3 month
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from skeletal muscles using the TRIzol reagent (Invitrogen).
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Data filtering: Illumina bcl2fastq v2.19 software used for basecalling.
Alignment: Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using tophat with parameters -p 4 --rg-platform-unit Illumina -r 200 --mate-std-dev 100 --no-coverage-search --microexon-search
Counts and differential expression was estimated using DESeq2 (Love et. al., 2014).
Genome_build: mm9
|
| |
|
| Submission date |
Jul 15, 2019 |
| Last update date |
Sep 05, 2019 |
| Contact name |
Yong Zhang |
| E-mail(s) |
yongzhang@ibms.pumc.edu.cn
|
| Organization name |
School of Basic Medicine, Peking Union Medical College
|
| Street address |
5 Dong Dan San Tiao
|
| City |
Beijing |
| ZIP/Postal code |
100005 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE134252 |
Muscle-secreted G-CSF as a metabolic niche factor ameliorates loss of muscle stem cell in aged mice (RNA-seq) |
| GSE134253 |
Muscle-secreted G-CSF as a metabolic niche factor ameliorates loss of muscle stem cell in aged mice |
|
| Relations |
| BioSample |
SAMN12273906 |
| SRA |
SRX6441337 |
