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| Status |
Public on Apr 01, 2024 |
| Title |
HS-3 |
| Sample type |
SRA |
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| Source name |
Liver
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| Organism |
Oncorhynchus mykiss |
| Characteristics |
tissue: Liver
cell type: Liver tissue
treatment: the experimental group is subjected to heat stress by treating the rainbow trout liver in 24C for a duration of 8 h
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| Extracted molecule |
total RNA |
| Extraction protocol |
According to the manufacturer's protocol, total RNA from the liver of rainbow trout was extracted using the Trizol kit (Invitrogen, Carlsbad, California, USA).
cDNA 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 using Illumina HiSeq6000 of Gene Denovo Biotechnology Co.
The short reads sequence alignment tool Bowtie2 (version 2.2.8) was used to map read sequences to the ribosomal RNA (rRNA) database, and the mapped reads were removed.
For each transcribed region, use StringTie software to calculate the FPKM (number of fragments per thousand base pairs of transcribed fragments per thousand base pairs) value to quantify its expression abundance and variation.
Assembly: Oncorhynchus mykiss Omyk_1.1
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample …
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| Submission date |
Mar 27, 2024 |
| Last update date |
Apr 01, 2024 |
| Contact name |
guiyan zhao |
| E-mail(s) |
zhaogy@st.gsau.edu.cn
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| Phone |
18893812949
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| Organization name |
Gansu Agricultural University
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| Street address |
Yingmen Village 1
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| City |
Lanzhou |
| ZIP/Postal code |
730070 |
| Country |
China |
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| Platform ID |
GPL29994 |
| Series (1) |
| GSE262612 |
Integrated transcriptome and Ribosome Profiling analyses elucidate the liver response of rainbow trout (Oncorhynchus mykiss) to heat stress |
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| Relations |
| BioSample |
SAMN40630765 |
| SRA |
SRX24078291 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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