|
Status |
Public on Sep 15, 2022 |
Title |
LiverA_Cattle |
Sample type |
SRA |
|
|
Source name |
liver
|
Organism |
Bos taurus |
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.
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|
|
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
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|
|
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 |
GPL24230 |
Series (1) |
GSE206184 |
Dynamic changes of gene expression in the liver during ruminant evolution |
|
Relations |
BioSample |
SAMN29094270 |
SRA |
SRX15712493 |