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Sample GSM7791041 Query DataSets for GSM7791041
Status Public on Feb 06, 2024
Title HCC827ASCL1, vehicle, rep3
Sample type SRA
 
Source name HCC827
Organism Homo sapiens
Characteristics cell line: HCC827
cell type: human NSCLC cell line
transfection: inducible ASCL1 transfected
treatment: vehicle treated
Treatment protocol vehicle or 100nM osimertinib
Growth protocol RPMI 1640 supplemented with 10% tet system-certified FBS, 1μg/ml doxycycline, 1mM sodium pyruvate, 10mM HEPES, 100U/ml penicillin and 100μg/ml streptomycin.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from cell lines using AllPrep DNA/RNA mini kit (Qiagen, 80204).
RNA-seq libraries were constructed using KAPA mRNA HyperPrep Kit (Kapa Biosystems, KR1352).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description HCC827ASCL1_V3
Data processing RNA-seq raw data were trimmed of adaptor sequences using Trim Galore and mapped to the human reference genome (hg38) using HISAT2.
The sequencing reads were annotated according to GENCODE v27 model and gene expression levels were quantified using StringTie
Differentially expressed genes were identified using DESeq2.
Assembly: hg38
Supplementary files format and content: excel file including normalized gene counts for all the cell lines and experimental conditions
 
Submission date Sep 19, 2023
Last update date Feb 06, 2024
Contact name Bomiao Hu
E-mail(s) bomiao.hu@yale.edu
Organization name Yale University
Street address 310 Cedar Street
City New Haven
State/province CT
ZIP/Postal code 06519
Country USA
 
Platform ID GPL16791
Series (2)
GSE243565 ASCL1 Drives Tolerance to Osimertinib in EGFR Mutant Lung Cancer in Permissive Cellular Contexts [Cell Line RNA-seq]
GSE243569 ASCL1 Drives Tolerance to Osimertinib in EGFR Mutant Lung Cancer in Permissive Cellular Contexts
Relations
BioSample SAMN37473063
SRA SRX21828554

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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