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Sample GSM7385129 Query DataSets for GSM7385129
Status Public on May 18, 2024
Title AML-12 cells, control, pLKO.1-2
Sample type SRA
 
Source name AML-12
Organism Mus musculus
Characteristics cell line: AML-12
cell type: hepatocyte
genotype: WT
Growth protocol AML-12 cells were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
Extracted molecule total RNA
Extraction protocol RNA was isolated using Trizol reagent.
A total amount of 3 µg RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext® UltraTM RNA Library Prep Kit for Illumina® (NEB, USA) following manufacturer’s recommendations and index codes were added to attribute sequences to each sample.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Raw reads in fastq format were processed to remove contaminating adapter sequences using Trimmomatics
Quality distribution plot and base content distribution were generated by FASTQC
RNA-seq reads were aligned to the mm10 genome using STAR.
Read count extraction were performed using HTSeq.
Assembly: mm10
Supplementary files format and content: tab-delimited text file includes raw counts for each Sample
 
Submission date May 19, 2023
Last update date May 18, 2024
Contact name Qianqian Xiao
Organization name Tongji Hospital
Department Departments of Internal Medicine
Lab Division of Cardiology
Street address 1095# Jiefang Ave., Wuhan 430030 People’s Rep. of China
City Wuhan
ZIP/Postal code 430030
Country China
 
Platform ID GPL24247
Series (1)
GSE232866 Ubiquitination of hepatic APOC3 by GM47544 prevents hypertriglyceridemia and ameliorates atherosclerosis
Relations
BioSample SAMN35177441
SRA SRX20435421

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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