|
| Status |
Public on Mar 29, 2024 |
| Title |
longissimus dorsi, jm3 |
| Sample type |
SRA |
| |
|
| Source name |
longissimus dorsi
|
| Organism |
Bos taurus |
| Characteristics |
tissue: longissimus dorsi
breed: Jiaxian Red
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using TRNzol Universal Reagent+small(DP424+RK177-A).A total amount of 3 µg RNA per sample was used as input material for the RNA sample preparations.
RNA libraries for RNA-seq were prepared using NEBNext® UltraTM RNA Library Prep Kit following manufacturer’s protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
JM3-FPKM
|
| Data processing |
Quality control.Raw data (raw reads) of fastq format were firstly processed through in-house perl scripts.
Reads mapping to the reference genome.Reads mapping to the reference genome.
Quantification of gene expression level.HTSeq v0.6.0 was used to count the reads numbers mapped to each gene.
Differential expression analysis.(For DESeq2 with biological replicates) Differential expression analysis of two conditions/groups (two biological replicates per condition) was performed using the DESeq2 R package (1.10.1).
Assembly: Bos taurus UMD3.1.1
Supplementary files format and content: 1ab-delimited text file includes FPKM values for each Sample
|
| |
|
| Submission date |
Mar 22, 2024 |
| Last update date |
Mar 29, 2024 |
| Contact name |
Geyang Zhang |
| E-mail(s) |
zhanggeyang2025@126.com
|
| Organization name |
Henan Academy of Agricultural Sciences
|
| Department |
Animal husbandry institute
|
| Street address |
116 Huayuan Road, Jinshui District
|
| City |
Zhengzhou |
| State/province |
Henan |
| ZIP/Postal code |
450002 |
| Country |
China |
| |
|
| Platform ID |
GPL26012 |
| Series (1) |
| GSE262289 |
POLB regulates proliferation and apoptosis of bovine primary myocytes |
|
| Relations |
| BioSample |
SAMN40583869 |
| SRA |
SRX24028063 |
