|
| Status |
Public on Jul 22, 2022 |
| Title |
Mature developmental time replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
Longissimus
|
| Organism |
Ovis aries |
| Characteristics |
breed: SuffolkxTexel
age: Postnatal d 243
replicate: replicate 1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with Trizol according to manufactures specifications. Qantificatioon and qualification were checked by 1% agarose gel, NanoPhotometer spectrophotometer, and Agilent Bioanalyzer 2100 system.
The NEBNext Multiplex Small RNA Library Prep Set for Illumina following manufacturer's recommendation and index codes were used to prepare the sequencing library.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
Mature developmental time, postnatal d 243, replicate 1
|
| Data processing |
Novogene's custom perl and python scripts were used to clean and filter the raw data
Bowtie 0.12.9 without mismatch for alignment
miRBase 20.0
mirdeep2 0.0.5
srna-tools-cli
RepeatMasker 4.0.3
miREvo v1.1
miRanda v3.3
DeSeq 1.12.0
GOSeq 2.12
KOBAS v 2.0
Assembly: Ovis aries (TEXEL) ensembl release 96
Supplementary files format and content: Text file of raw read counts for all miRNA features for all samples.
|
| |
|
| Submission date |
Jun 27, 2022 |
| Last update date |
Jul 22, 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 |
GPL23810 |
| Series (1) |
| GSE207055 |
miRNA transcriptome and myofiber characteristics of lamb skeletal muscle during hypertrophic growth |
|
| Relations |
| BioSample |
SAMN29382380 |
| SRA |
SRX15922051 |
