|
| Status |
Public on Feb 26, 2022 |
| Title |
D 92 high concentrate feeding replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
Longissimus muscle
|
| Organism |
Bos taurus |
| Characteristics |
tissue: Longissimus muscle
breed: angus-cross
days on high concentrate diet: 92
replicate: 3
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction of total RNA was extracted with Trizol according to manufactures specifications. Qantificatioon and qualification were checked by NanoPhotometer spectrophotometer and Agilent Bioanalyzer 2100 system.
cDNA libraries were constructed using Ion Total RNA-Seq Kit v2 according to the manufacturer.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Ion Torrent S5 |
| |
|
| Description |
D 92 high concentrate feeding rep 3
4627_435_D90
|
| Data processing |
Ion torrent Small RNAseq, base-calling and adapter-trimming.
StrandNGS, quality control for pre- and post-alignment quality
StrandNGS, alignment to genome using defalt parameters
StrandNGS, Quantile algorithm used for sample normalization
StrandNGS, ANOVA preformed to determine differential expression
Genome_build: bosTau4
Supplementary_files_format_and_content: Text file of normalized read counts for all miRNA features for all samples
|
| |
|
| Submission date |
Feb 23, 2022 |
| Last update date |
Feb 26, 2022 |
| Contact name |
Susan Duckett |
| E-mail(s) |
sducket@clemson.edu
|
| Organization name |
Clemson University
|
| Department |
Animal and Veterinary Science
|
| Street address |
105 Collings ST, RM 112 BRC
|
| City |
Clemson |
| State/province |
South Carolina |
| ZIP/Postal code |
29634 |
| Country |
USA |
| |
|
| Platform ID |
GPL31985 |
| Series (1) |
| GSE197315 |
Identification of microRNA transcriptome involved in bovine intramuscular fat deposition |
|
| Relations |
| BioSample |
SAMN26200311 |
| SRA |
SRX14266538 |
