|
| Status |
Public on Dec 30, 2015 |
| Title |
Landrace 5 dpi |
| Sample type |
SRA |
| |
|
| Source name |
lungs
|
| Organism |
Sus scrofa |
| Characteristics |
hp-prrsv infection: 5 dpi
tissue: lung
age: 35 days old
breed: Landrace
genotype: WT type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Pigs were dissected and the lung tissue samples were stored in liquid nitrogen. The total RNA were extracted using Trizol reagents.
Standard Illumina protocols were used to prepare the RNA libraries
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
three pigs total RNA were pooled at equal quantities
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Abondon reads with >50% bases have a quality < 20
The clean reads were mapped using BOWTIE2 (default set)
RPKM was used to measure the expression level of genes in different samples
Genome_build: Ssc3
Supplementary_files_format_and_content: tab-delimited files include RPKM values for each sample
|
| |
|
| Submission date |
May 17, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Ning Li |
| E-mail(s) |
ninglcau@cau.edu.cn
|
| Organization name |
China Agriculture University
|
| Street address |
Yuanmingyuan West Rd. 2,Haidian District
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
| |
|
| Platform ID |
GPL10945 |
| Series (1) |
| GSE68966 |
Genetic variation contribute to different susceptibility to HP-PRRSV infection across pig breeds |
|
| Relations |
| BioSample |
SAMN03699808 |
| SRA |
SRX1030177 |
