|
| Status |
Public on Jul 01, 2024 |
| Title |
Japanese quail, Liver, 16v, Sample 3 |
| Sample type |
SRA |
| |
|
| Source name |
Liver tissue
|
| Organism |
Coturnix japonica |
| Characteristics |
tissue: Liver tissue
treatment: Long 16v photoperiod
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted using the Qiagen RNEasy plus mini-kit
RNA Libraries were constructed using the PCR_cDNA sequencing barcoding kit (SQK-PCB109, Oxford Nanopore) as per manufacturers instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
GridION |
| |
|
| Description |
Liv 100
LivExpressedGenesTranscripts.csv
|
| Data processing |
Raw reads were demultiplexed and basealled using guppy basecaller
Porechop was used to trim adapters
Filtlong used to select long reads (>25 reads)
Minimap2 used to align reads to Mus musculus genome (GCRm39)
Transcript expression levels generated using Salmon
Assembly: GCF_016699485.2
Supplementary files format and content: Comma Separated Values Files with expressed gene transcripts for each sample
|
| |
|
| Submission date |
Jun 27, 2024 |
| Last update date |
Jul 01, 2024 |
| Contact name |
Sayantan Sur |
| E-mail(s) |
sayantansur008@gmail.com
|
| Organization name |
University of Glasgow
|
| Department |
School of Biodiversity, One Health & Veterinary Medicine
|
| Lab |
Stevenson Lab
|
| Street address |
University of Glasgow, Vet School, Garscube Campus, Bearsden Road
|
| City |
Glasgow |
| ZIP/Postal code |
G61 1QH |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL34652 |
| Series (1) |
| GSE270939 |
Molecular regulation of photoinduced seasonal changes in Japanese Quail (Coturnix japonica) energy rheostasis. |
|
| Relations |
| BioSample |
SAMN42144925 |
| SRA |
SRX25128665 |
