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Sample GSM5663734 Query DataSets for GSM5663734
Status Public on Mar 01, 2022
Title CFBE ALI rep2 (RNA-seq)
Sample type SRA
Source name Epithelial cells
Organism Homo sapiens
Characteristics culture condition: Air-liquid interface
cell line: CFBE (CFBE41o- cells stably expressing F508del mutant CFTR)
cell type: Cystic fibrosis (CF) bronchial epithelial cells
Treatment protocol For transwell-cultured (ALI) condition, cells were seeded on Millicell cell culture insert (Millipore) placed in 24-well plates. Media on the apical surface was removed daily until complete confluency (dry membrane) and basolateral media were replaced every other two days. Confluent cells were cultured for at least another 10days for polarization. For submerged cells, cells were also cultured in 24well plates and cultured till fully confluent.
Growth protocol Human bronchial epithelial CFBE41o- cells stably expressing F508del-CFTR (CFBE) or wild-type CFTR (WTBE) were cultured in MEM medium, supplemented with 10% fetal bovine serum (Hyclone), 0.5% Penicillin/Streptomycin and 2mM L-glutamine. 0.5µg/mL puromycin (InvivoGen) were added for WTBE while 25µg/mL puromycin for CFBE cells to select stably transfected cells. Cells were maintained in a humidified chamber with 5% CO2 at 37C.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using RNeasy Mini Kit (Qiagen) and quantified by Qubit RNA HS Assay Kit (ThermoFisher).
The library was prepared using illumina TruSeq Stranded mRNA sample prep kit
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model NextSeq 2000
Description S11_0
Data processing Paired raw reads were trimmed and mapped on Banana Slug Analytics Platform (
Genome_build: hg19
Supplementary_files_format_and_content: Excel file with FPKM values for each sample
Submission date Nov 01, 2021
Last update date Mar 01, 2022
Contact name Jay Kolls
Organization name Tulane University
Department Medicine
Lab Center for Translational Research in Infection and Inflammation
Street address 1430 Tulane Ave
City New Orleans
State/province LA
ZIP/Postal code 70112
Country USA
Platform ID GPL30173
Series (2)
GSE186919 mRNA-Seq of WTBE and CFBE cells
GSE186920 Multi-omics comparisons between CFBE41o- cells stably expressing wide-type CFTR and F508del-mutant CFTR
BioSample SAMN22818371
SRA SRX12877078

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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