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Sample GSM3577500 Query DataSets for GSM3577500
Status Public on Jan 25, 2019
Title HiBEC_Ctrl2
Sample type SRA
 
Source name Biliary Epithelial Cells
Organism Homo sapiens
Characteristics cell line: Human Intrahepatic Biliary Epithelial Cells (HIBEC)
passage: P4-6
agent: Vehicle (Control)
Treatment protocol Recombinat human TGF-beta at 10ng/ml for 48 hours
Growth protocol Cells grown in H69 media used for cholangiocyte cell lines
Extracted molecule total RNA
Extraction protocol Qiagen Kit
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description 2_HiBEC_Ctrl2
Data processing TopHat v2.1.0 for alignment
FeatureCounts to quantify expression
edgeR for defining differentially expressed genes
Genome_build: GRCh38 (hg38)
Supplementary_files_format_and_content: tsv format containing edgeR differential expression results along with RPKM values
 
Submission date Jan 24, 2019
Last update date Jan 26, 2019
Contact name Aditya Bhagwate
E-mail(s) bhagwate.adityavijay@mayo.edu
Organization name Mayo Clinic
Street address 200 1st Street SW
City Rochester
State/province MN
ZIP/Postal code 55905
Country USA
 
Platform ID GPL21290
Series (1)
GSE125577 Global Gene Expression Changes in Cholangiocytes Treated with TGF-beta
Relations
BioSample SAMN10805306
SRA SRX5286888

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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