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Sample GSM8225394 Query DataSets for GSM8225394
Status Public on May 29, 2024
Title WT_Sibling_Control_1
Sample type SRA
 
Source name zebrafish larvae
Organism Danio rerio
Characteristics tissue: zebrafish larvae
time: 3 days post fertilization
genotype: WT
Growth protocol Larvae were kept in E3 medium with methylene blue at 28.5°C
Extracted molecule total RNA
Extraction protocol RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Image analysis and base calling were performed using Solexa pipeline v1.8 (Off-Line Base Caller software, v1.8)
Sequence quality was examined using the FastQC software(v0.11.7)
The trimmed reads (trimmed 5’, 3’-adaptor bases using cutadapt(v1.17)) were aligned to reference genome(GRCh37) using Hisat2 software(v2.1.0)
The transcript abundance for each sample was estimated with StringTie(v1.3.3), and the FPKM value for gene and transcript level was calculated with R package Ballgown(v2.10.0)
Assembly: GRCh37
Supplementary files format and content: the FPKM value of detected mRNA for each sample
 
Submission date Apr 23, 2024
Last update date May 29, 2024
Contact name 林 赵
E-mail(s) chendy@nankai.edu.cn
Phone 18702228732
Organization name 医学院
Street address 学府街道卫津路南开大学医学协同创新中心
City Tianjin
State/province 南开区
ZIP/Postal code zhaolin
Country China
 
Platform ID GPL24995
Series (1)
GSE264674 Deficiency of P2RY11 causes narcolepsy and attenuates recruitment of neutrophils and macrophages of inflammatory response in zebrafish
Relations
BioSample SAMN41065657
SRA SRX24351565

Supplementary file Size Download File type/resource
GSM8225394_WT_Sibling_Control_1-Expression_Gene.xlsx 732.7 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA

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