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Sample GSM5261273 Query DataSets for GSM5261273
Status Public on Apr 22, 2024
Title Human esophageal squamous cell carcinoma cells (KYSE70) without treatment, replicate 1
Sample type SRA
Source name Human esophageal squamous cell carcinoma cells (KYSE70)
Organism Homo sapiens
Characteristics cell line: KYSE70
cell type: esophageal squamous cell carcinoma cells
treatment: untreated
Treatment protocol The cells were treated with 10 µM pyrimethamine or 20 nM mitoxantrone for 72 h.
Growth protocol The cells were cultured in RPMI1640 medium supplemented with 10% fetal bovine serum, 50 U/ml penicillin, and 50 µg/ml streptomycin at 37°C in 5% CO2/95% air.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from human esophageal squamous cell carcinoma cells (KYSE70) using RNeasy Kit (Qiagen; Valencia, CA).
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
Description K70_1
Data processing The data quality was assessed with FastQC (version 0.11.5), low-quality reads were removed, and remaining adapter sequences were hard clipped with cutadapt (version 1.12) whenever applicable. The quality filtered reads were aligned with STAR (version 2.6.90c) to human reference genome (hg38) with its respective RefSeq annotation, at last, the expression levels of genes were obtained with FeatureCounts (version 1.5.1).
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files for each Sample
Submission date Apr 23, 2021
Last update date Apr 22, 2024
Contact name Xiaoxin Luke Chen
Organization name Coriell Institute for Medical Research
Lab Chen
Street address 403 Haddon Ave
City Camden
State/province NJ
ZIP/Postal code 08103
Country USA
Platform ID GPL24676
Series (1)
GSE173164 To investigate the effects of NRF2 inhibitors (pyrimethamine and mitoxantrone) on gene expression in a human esophageal squamous cell carcinoma cell line (KYSE70)
BioSample SAMN18839249
SRA SRX10664002

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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