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Sample GSM5019796 Query DataSets for GSM5019796
Status Public on Jan 15, 2021
Title 6od: white light for 8weeks
Sample type SRA
 
Source name retina
Organism Cavia porcellus
Characteristics tissue: retina
age: 12 weeks
treatment: receive white light for 8weeks
Treatment protocol In this study, guinea pigs were randomly divided into 3 groups that received different lighting conditions (12:12 light cycle) for 8 weeks:
Growth protocol Forty-five male tri-color guinea pigs (Dunkin-Hartley strain, 2 weeks old) were obtained from the laboratory of Zhejiang Academy of Medical Sciences.
Extracted molecule total RNA
Extraction protocol Retinas were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
The libraries were sequenced on an Illumina HiSeq 2500 (Illumina, 144 CA, USA) with paired end reads.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Retinas were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent.
The RNeasy Mini Kit (Qiagen) was used to isolate RNA from tissues according to the manufacturer’s instructions
The RNA was quantified with spectrophotometry on a Nanodrop (Thermo Fisher Scientific, Grand Island, NY), and 260/280 ratios for all sample ranged from 2.11-2.13
The RNA Integrity Number (RIN = 9.0-10.0) was then evaluated on an Agilent Bioanalyzer (Agilent, Santa Clara, CA).
the RNA-seq was performed by Genesky Biotechnologies (Shanghai, China). Briefly, 1 g of purified retinal RNA was used to construct Illumina sequencing libraries using the Illumina (San Diego, CA) TruSeq Stranded Total RNA LT kit.
Genome_build: Genome_build: cavPor3
Supplementary_files_format_and_content: Supplementary_files_format_and_content: tab-delimited text file includes gene abundance for each sample
 
Submission date Jan 14, 2021
Last update date Jan 15, 2021
Contact name Yingying Wen
E-mail(s) wenyingying1@zju.edu.cn
Phone 17857319109
Organization name First Affiliated Hospital, College of Medicine, Zhejiang University, Hangzhou, Zhejiang, China
Department Department of Ophthalmology
Street address 79 Qingchun Road
City Hangzhou
ZIP/Postal code 310000
Country China
 
Platform ID GPL22346
Series (1)
GSE164802 Potential Mechanism of Wavelength Defocus in Bidirectional Regulation of Refractive Development in Guinea Pigs
Relations
BioSample SAMN17313583
SRA SRX9849046

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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