|
| Status |
Public on Jan 08, 2016 |
| Title |
L20-3 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Gallus gallus |
| Characteristics |
breed: Lushi chicken
age: 20 weeks
Sex: female
tissue: liver
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Liver tissues were moved,snap-frozen in liquid nitrogen,total RNA was harvested with TRIzol® Reagents.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Basecalling performed using CASAVA version 1.8.2
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence using FASTX-Toolkit version: 0.0.13.
mRNA-seq reads were aligned to the reference genome ensemble Galgal4 using spliced mapping algorithm in TopHat version: 2.0.9
Fragments per kilo base of exon model per million mapped reads (FPKM) of each gene were calculated according to the Cufflink (version: V2.1.1)
Differential expression were analysed using cuffdiff in version 2.3.4
Genome_build: galGal4
Supplementary_files_format_and_content: tab-delimited text files include normalized FPKM values and raw fragment counts for each Sample
|
| |
|
| Submission date |
Jun 18, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
HONG LI |
| E-mail(s) |
lihong19871202@163.com
|
| Organization name |
Henan Agriculture University
|
| Street address |
95 Wenhua Road, Jinshui District
|
| City |
Zheng |
| ZIP/Postal code |
450002 |
| Country |
China |
| |
|
| Platform ID |
GPL19005 |
| Series (1) |
| GSE70010 |
Transcriptome profile of liver at different physiological stages in laying hens |
|
| Relations |
| BioSample |
SAMN03782284 |
| SRA |
SRX1065402 |
