|
| Status |
Public on Jun 04, 2018 |
| Title |
E17-1 |
| Sample type |
SRA |
| |
|
| Source name |
chicken liver at embryonic day 17 of the lean line
|
| Organism |
Gallus gallus |
| Characteristics |
tissue: liver
developmental stage: E17
chicken line: lean
|
| Treatment protocol |
embryos from the fat and lean chicken lines were used
|
| Growth protocol |
chicken eggs were incubated for embryos
|
| Extracted molecule |
total RNA |
| Extraction protocol |
liver samples of chicken embryos were taken
libraries for digital gene expression were constructed
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
Short reads were generated on the Illumina platform.
Clean reads were generated by removing low quality and adaptor sequence containing reads.
Clean reads were aligned to the Galgal4 genome assembly using BWA with default configurations.
After performing the assessment of sequence saturation and read distribution on reference genes, the expression levels of each gene were calculated as FPKM using the number of reads uniquely mapped to the specific gene and the total number of uniquely mapped reads in the sample.
Genes and isoforms expression level are quantified
Genome_build: Galgal4
Supplementary_files_format_and_content: txt format, containing gene expression levels
|
| |
|
| Submission date |
Jul 11, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Zhi-Qiang Du |
| E-mail(s) |
zhqdu@neau.edu.cn
|
| Phone |
86-451-55191805
|
| Organization name |
Northeast Agricultural University
|
| Street address |
59 Mucai Street, XiangFang District
|
| City |
Harbin |
| ZIP/Postal code |
150030 |
| Country |
China |
| |
|
| Platform ID |
GPL10223 |
| Series (1) |
| GSE101182 |
Hepatic lipid metabolism in chicken lines divergently selected for abdominal fat content |
|
| Relations |
| BioSample |
SAMN07342521 |
| SRA |
SRX2995933 |
