|
| Status |
Public on Dec 01, 2020 |
| Title |
E40_R_MeRIP-ip_2 |
| Sample type |
SRA |
| |
|
| Source name |
longissimus dorsi
|
| Organism |
Sus scrofa |
| Characteristics |
tissue: skeletal muscle
developmental stage: 40 days post coitus
m6a antibody: Synaptic systems, 202003
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA (PK15 and skeletal muscle) was purified using Trizol reagent (Invitrogen, CA, USA) according to the manufacturer’s instructions.
To degrade any possible DNA contamination, the total RNA samples were dissolved in diethylpyrocarbonate (DEPC)-treated water and treated with DNaseI. Paired-end sequencing libraries with insert size of 300 bp were conducted on the HiSeq 2,500 platform following the Illumina’s protocols.
MeRIP-seq/R-MeRIP-seq
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
m6A immunoprecipitate rRNA_depleted RNA
|
| Data processing |
Trimmomatic was used for trimming adapters and filtering on length and quality of the raw sequencing reads with default settings
Clean reads were mapped to respective reference genome using hisat2 with default settings.
reference genome:Sscrofa11.1 (GCA_000003025.6)
|
| |
|
| Submission date |
Dec 12, 2019 |
| Last update date |
Dec 01, 2020 |
| Contact name |
Xin xin Zhang |
| E-mail(s) |
zhangxinxin91@126.com
|
| Phone |
18927861415
|
| Organization name |
chinese academy of agricultural science
|
| Department |
agricultural genomics institute at shenzhen
|
| Lab |
fei Gao
|
| Street address |
No.7 pengfei road Dapend
|
| City |
shenzhen |
| State/province |
china/guangdong |
| ZIP/Postal code |
518000 |
| Country |
China |
| |
|
| Platform ID |
GPL19176 |
| Series (1) |
| GSE141943 |
A longitudinal m6A epi-transcriptome profile during porcine development of prenatal skeletal muscles |
|
| Relations |
| BioSample |
SAMN13550954 |
| SRA |
SRX7354803 |
