|
| Status |
Public on Apr 22, 2024 |
| Title |
HC2_RNA |
| Sample type |
SRA |
| |
|
| Source name |
the longissimus dorsi muscles
|
| Organism |
Sus scrofa |
| Characteristics |
tissue: the longissimus dorsi muscles
treatment: calcium supplement
|
| Treatment protocol |
At the end of the experiment, the pigs were euthanized through bloodletting. Samples were taken from the selected pigs’ blood, backfat, and longissimus dorsi muscle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA_seq:The total RNA of a longissimus dorsi muscle sample was extracted by TRIzol reagent (Ambion, Inc., Austin, TX, USA) according to the manufacturer’s protocol.
RNA libraries were prepared according to the VAHTS mRNA-seq v.3 Library Prep Kit for Illumina protocol, and the raw sequencing reads were generated on an Illumina HiSeqX Ten sequencer.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
For mRNA sequencing data sets, high quality reads were mapped to a RefSeq mRNA reference sequence (Sus_scrofa.11.1) using the FANSe2 algorithm. Reads that corresponded to different splice variants of the same gene were combined. The mRNA in each sample was normalized using RPKM (reads per kilobase per million reads), whereas the relative abundance between two groups was standardized using the edgeR program.
Assembly: Sus_scrofa.11.1
Supplementary files format and content: bigWig
|
| |
|
| Submission date |
Apr 22, 2024 |
| Last update date |
Apr 22, 2024 |
| Contact name |
Jingsu Yu |
| Organization name |
Guangxi University
|
| Department |
College of Animal Science and Technology
|
| Street address |
Daxuedong Road, Xixiangtang District
|
| City |
Nanning |
| State/province |
Guangxi |
| ZIP/Postal code |
530004 |
| Country |
China |
| |
|
| Platform ID |
GPL22918 |
| Series (1) |
| GSE264551 |
Translatomics reveals the role of dietary calcium addition in regulating muscle fat deposition in pigs |
|
| Relations |
| BioSample |
SAMN41045357 |
| SRA |
SRX24335692 |
