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| Status |
Public on Feb 08, 2020 |
| Title |
D_L16 |
| Sample type |
SRA |
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| Source name |
liver tissue
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| Organism |
Anas platyrhynchos |
| Characteristics |
variety: domestica
treatment: high ammonia
tissue: liver
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| Extracted molecule |
total RNA |
| Extraction protocol |
The liver tissue was removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to whole genome using Hisat2v2.0.5
Genome_build: IASCAAS_PekingDuck_PBH1.5 (ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/850/225/GCF_003850225.1_IASCAAS_PekingDuck_PBH1.5/GCF_003850225.1_IASCAAS_PekingDuck_PBH1.5_genomic.fna.gz)
Supplementary_files_format_and_content: FPKM,expected number of Fragments Per Kilo base of transcript sequence per Millions base pairs sequenced,considers the effect of sequencing depth and gene length for the reads count at the same time
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| Submission date |
Feb 07, 2020 |
| Last update date |
Feb 08, 2020 |
| Contact name |
chunhong zhu |
| E-mail(s) |
zhuch_1304428@126.com
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| Organization name |
Jiangsu Institute of Poultry Science
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| Street address |
Cangjie Rd.58
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| City |
Yangzhou |
| ZIP/Postal code |
225125 |
| Country |
China |
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| Platform ID |
GPL28134 |
| Series (1) |
| GSE144924 |
Effects of atmospheric ammonia on the production performance, serum biochemical indices, and liver RNA-seq data of laying ducks |
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| Relations |
| BioSample |
SAMN14055994 |
| SRA |
SRX7692217 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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