NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM5571757 Query DataSets for GSM5571757
Status Public on Oct 12, 2021
Title BEAS2B KRAS/p53
Sample type SRA
 
Source name Human normal lung epithelial cells
Organism Homo sapiens
Characteristics genotyping: p53 R175H+KRAS G12V
tissue origin: 2D cell line
Treatment protocol KRAS G12V and p53 R175H lentiviruses and PIK3CA E545K retroviruses were used to establish the BEAS2B stable cell lines. Cell lines were infected with viral-containing supernatants for a period of 4-8 hours, and then the infected cultures were selected by puromycin (PIK3CA vectors), GFP-sorting (KRASG12V) or blasticidin (p53R175H).
Growth protocol BEAS-2B were propagated in RPMI-1640 media containing 1x penicillin/streptomycin, 4mM L-glutamine, 10% fetal bovine serum in 10 cm gelatin-coated petri-dishes.
Extracted molecule total RNA
Extraction protocol RNA from treated cell lines was extracted using Absolutely RNA Mini-prep kits (Agilent).
RNA libraries were prepared for sequencing using BGI protocols.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model MGISEQ-2000RS
 
Data processing Sequencing and base-calling were performed by BGI (Beijing Genomics Institute).
Sequencing reads were trimmed and filtered using Trimmomatic (V0.39) to remove adapters and low quality reads. Reads were mapped to Ensembl GRCh38 transcripts annotation (release 98), using RSEM (v1.3.2) and STAR (2.6.1d) with default settings.
Genome_build: GRCh38 release 98
Supplementary_files_format_and_content: tab-delimited text files including TPM, FPKM and expected_count for each gene
 
Submission date Sep 09, 2021
Last update date Oct 13, 2021
Contact name Fan Chen
E-mail(s) john_fan_chen@outlook.com
Phone 8592856887
Organization name University of Kentucky
Department Toxicology and Cancer Biology
Lab Brainson Lab
Street address 1095 V.A. Drive, HSRB 461
City Lexington
State/province Kentucky
ZIP/Postal code 40503
Country USA
 
Platform ID GPL30209
Series (1)
GSE183818 EZH2 inhibition confers PIK3CA-driven lung tumors enhanced sensitivity to PI3K inhibition
Relations
BioSample SAMN21370284
SRA SRX12123284

Supplementary file Size Download File type/resource
GSM5571757_BEAS-KP.star.genes.results.gz 1.5 Mb (ftp)(http) RESULTS
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap