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Sample GSM7156050 Query DataSets for GSM7156050
Status Public on May 05, 2023
Title CHO_WTHK2_rep3
Sample type SRA
Source name MI5-4 (CHO)
Organism Cricetulus griseus
Characteristics cell line: MI5-4 (CHO)
Treatment protocol EV cells were treated 10 mM sodium lactate for 24 h.
Growth protocol MI5-4 CHO cells were cultured in Minimum Essential Medium alpha containing 1,000 mg/L glucose supplemented with 10% fetal bovine serum and 1% penicillin‒streptomycin at 37 °C in a humidified atmosphere with 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from MI5-4 CHO cells using a Direct-zol RNA MicroPrep Kit. The RNA purity, concentration, and integrity were evaluated with an Agilent TapeStation 4200.
RNA libraries were prepared using a Nugen Universal Plus mRNA-seq library preparation kit.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Description WT_3
Data processing Quality check was done using FastQC v0.11.8
Sequenced reads were trimmed using cutadapt v1.18, then mapped to CHOK1GS (Ensembl) using STAR v2.7.0a
Read counts were quantified by featureCount v2.0.1 and normalized to counts per million reads (CPM) using edgeR v3.8
Assembly: CHOK1GS
Supplementary files format and content: tab delimited-text file including CPM values from each sample
Submission date Apr 06, 2023
Last update date May 05, 2023
Contact name Nissim Hay
Organization name University of Illinois Chicago
Department BMG
Street address 900 South Ashland Ave
City Chicago
State/province IL
ZIP/Postal code 60607
Country USA
Platform ID GPL27425
Series (2)
GSE229153 Hexokinase 2 and lactate mediated gene expression via histone H3 lysine 18 lactylation (CHO RNA-Seq)
GSE229156 Hexokinase 2 and lactate
SRA SRX19900047
BioSample SAMN34105232

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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