|
| Status |
Public on Jun 03, 2021 |
| Title |
E35 skeletal muscle RNA-seq replicate_2 |
| Sample type |
SRA |
| |
|
| Source name |
skeletal muscle
|
| Organism |
Sus scrofa |
| Characteristics |
breed: Luchuan pig
tissue type: longissimus dorsi muscle
age: embryonic day 35
Sex: female
chip antibody: none
restriction enzyme: none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Skeletal muscles were flash frozen in liquid nitrogen, and RNA was harvested using Trizol reagent
rRNA depletion protocol (Ribo-Zero kit, Epicentre) and Illumina TruSeq stranded RNA-Seq library protocol are used to construct the RNA-Seq libraries. cDNA libraries were sequenced on HiSeq X Ten (Illumina) platform to produce 150-bp paired-end raw reads.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Sequence reads are aligned to pig reference genome (Sscrofa 11.1) by alignment tool STAR (version 2.6.0c).
The aligned reads of these samples were assembled using Cufflinks (version 2.1.1).
Kallisto (v 0.44.0) was used to quantify gene expression and obtain TPM expression values.
Genome_build: Sscrofa11.1
|
| |
|
| Submission date |
Feb 08, 2021 |
| Last update date |
Jun 03, 2021 |
| Contact name |
Renqiang Yuan |
| E-mail(s) |
yuanrq3@mail2.sysu.edu.cn
|
| Organization name |
SUN YAT-SEN UNIVERSITY
|
| Street address |
No. 135, Xingang Xi Road
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510275 |
| Country |
China |
| |
|
| Platform ID |
GPL22918 |
| Series (1) |
| GSE166346 |
Reorganization of chromatin architecture during prenatal development of porcine skeletal muscle |
|
| Relations |
| BioSample |
SAMN17833778 |
| SRA |
SRX10048358 |
