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Sample GSM4879608 Query DataSets for GSM4879608
Status Public on Nov 03, 2022
Title Oxa2
Sample type SRA
 
Source name liver
Organism Homo sapiens
Characteristics cell type: liver hepatocellular carcinoma
tissue: liver
cell line: HepG2
phenotype: oxaliplatin resistant cells
Treatment protocol none
Growth protocol HepG2 cells were cultured in DMEM medium containing fetal bovine serum and antibiotics and placed in incubator with 5% carbon dioxide at 37 C
Extracted molecule total RNA
Extraction protocol Different groups of HepG2 cell lines were flash frozen on dry ice, and RNA was harvested using Trizol reagent.We used 2 ug total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard nova6000 Illumina PE150 protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Nova6000 software used for basecalling.
After analyzing the RNA integrity of the sample and whether there is DNA contamination, Nanodrop is used to quantify and detect the RNA concentration and purity, and then use the Agilent 2100 bioanalyze to accurately detect the RNA integrity.
After the library is constructed, Qubit 2.0 is used for preliminary quantification, then Agilent 2100 is used to detect the Insert size of the library, and then the effective concentration of the library is accurately quantified using the qRT-PCR method to ensure the quality of the library.
Perform Illumina PE150 sequencing after pooling according to the effective concentration of the library and data output requirements. After the sequencing is completed, it is mainly based on the statistics of sequencing error rate, data volume, comparison rate, etc., to evaluate that the sequencing of the library is up to the standard for subsequent analysis.
Genome_build: mm9
 
Submission date Nov 04, 2020
Last update date Nov 03, 2022
Contact name Luyuan Ma Luyuan Ma
E-mail(s) miraclexxj@126.com
Phone 86-13623319263
Organization name the Third Hospital of Hebei Medical University
Street address No.68, Xiangjiang Road
City Shijiazhuang
ZIP/Postal code 050000
Country China
 
Platform ID GPL24676
Series (1)
GSE160812 Different expression of lincRNAs between wild type and oxaliplatin resistant HepG2 cell line
Relations
BioSample SAMN16661618
SRA SRX9430916

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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