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Sample GSM6037618 Query DataSets for GSM6037618
Status Public on Apr 10, 2024
Title rat injected with PBS rep2
Sample type SRA
Source name liver
Organism Rattus norvegicus
Characteristics tissue: liver
strain: Sprague-Dawley rat
age: 5 months
genotype: wild type
treatment: PBS injection
Treatment protocol Cirrhosis rats injected with PBS or HepLPCs
Extracted molecule total RNA
Extraction protocol Total RNA from liver tissue was isolated using TRIzol® Reagent (Invitrogen). DNase I (TaKara) was used to remove genomic DNA. The concentration and purity of RNA samples was determined by 2100 Bioanalyser (Agilent) and quantified using the ND-2000 (NanoDrop Technologies).
Library preparation, and Illumina Hiseq xten/Nova seq 6000 Sequencing RNA-seq transcriptome librariy was prepared following TruSeqTM RNA sample preparation Kit from Illumina (San Diego, CA) using 1μg of total RNA.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Data processing The raw paired end reads were trimmed and quality controlled by SeqPrep and Sickle with default parameters
Clean reads were separately aligned to reference genome with orientation mode using HISAT2 software
The mapped reads of each sample were assembled by StringTie in a reference-based approach.
Assembly: hg19
Supplementary files format and content: Tab-delimited text files include RPKM values for each Sample
Submission date Apr 10, 2022
Last update date Apr 10, 2024
Contact name hexin Yan
Phone 86-21-81875361
Organization name Shanghai Reji Hospital
Street address Pujian Road
City Shanghai
ZIP/Postal code 200120
Country China
Platform ID GPL25947
Series (1)
GSE200550 Hepatocyte-derived liver progenitor-like cells attenuate liver cirrhosis via induction of apoptosis in hepatic stellate cells
BioSample SAMN27505556
SRA SRX14801944

Supplementary file Size Download File type/resource
GSM6037618_PBS_2.txt.gz 239.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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