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Sample GSM5598144 Query DataSets for GSM5598144
Status Public on Oct 12, 2021
Title HS_Colon_1
Sample type SRA
 
Source name HS
Organism Rattus norvegicus
Characteristics tissue: Colon
treatment: HS
Extracted molecule total RNA
Extraction protocol Total RNA of kidney cortex and colon was extracted using TRIzol reagent according to the manufacturer’s instructions. cDNA libraries were prepared by TruePrep® DNA Library Prep Kit V2 for Illumina (Vazyme, Nanjing, China). Index-labeled libraries sized at 250–1000 bp fragment length were recovered by using VANTS® DNA Clean Beads (Vazyme, Nanjing, China).
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing NEXTSEQ 500 (Illumina) and single-end 75-bp read flow cells were used in this study
The quality of sequencing data was evaluated using FastQC (v0.11.9). Adapters and low-quality reads were trimmed by Trimmomatic (v0.39).
All the remaining qualified reads were mapped to the Rattus norvegicus genome (Rnor_6.0) using HiSat2 (v2.1.0). Then, FeatureCounts (v1.6.5) was employed for gene quantification to build an expression matrix.
Genome_build: Rattus norvegicus genome (Rnor_6.0)
Supplementary_files_format_and_content: csv file include raw count values for each tissue
 
Submission date Sep 27, 2021
Last update date Oct 12, 2021
Contact name Ruifeng Ding
E-mail(s) ruifengding@usst.edu.cn
Organization name Changzheng Hospital, Second Affiliated Hospital of Naval Medical University
Department Department of Anesthesiology
Street address No. 415 Fengyang Road, Huangpu District
City Shanghai
ZIP/Postal code 200003
Country China
 
Platform ID GPL20084
Series (1)
GSE184844 Calcitriol ameliorates damage in high-salt diet-induced hypertension: evidence of communication with the gut–kidney axis
Relations
BioSample SAMN21855681
SRA SRX12374146

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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