|
| Status |
Public on Sep 15, 2022 |
| Title |
LiverC_Sheep |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Ovis aries |
| Characteristics |
tissue: liver
development stage: adult
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA were extracted using TRIzol method from frozen liver samples
mRNA were enriched using magnetic beads with Oligo(dT) and sheared. The cDNA was synthesized using random hexamers, end-repaired, and ligated to A base and sequencing adapters.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
The adapter sequences and low-quality bases were filtered using Trimmomatic v0.39
The trimmed reads were mapped to the Ensembl 103 version of reference genomes with annotated genes using STAR aligner v 2.7.6 with the following options: “--outFilterMismatchNmax 3 –outFilterType BySJout –quantMode GeneCounts –outFilterMismatchNoverLmax 0.04 –outSAMtype SAM SortedByCoordinate”.
Gene expression levels were quantified as counts using featureCounts
Assembly: ARS-UCD1.2, Oar_rambouillet_v1.0, ARS1
Supplementary files format and content: tab-delimited text files include gene counts for each Sample
|
| |
|
| Submission date |
Jun 15, 2022 |
| Last update date |
Sep 15, 2022 |
| Contact name |
Siqian Chen |
| E-mail(s) |
siqianchen1994@gmail.com
|
| Phone |
15652765993
|
| Organization name |
China Agricultural University
|
| Department |
College of Animal Science and Technology
|
| Lab |
National Engineering Laboratory for Animal Breeding
|
| Street address |
2rd, Yuanmingyuan West Road
|
| City |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
| |
|
| Platform ID |
GPL23810 |
| Series (1) |
| GSE206184 |
Dynamic changes of gene expression in the liver during ruminant evolution |
|
| Relations |
| BioSample |
SAMN29094265 |
| SRA |
SRX15712498 |
