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Sample GSM5060188 Query DataSets for GSM5060188
Status Public on Feb 01, 2024
Title CYP11RNA
Sample type SRA
 
Source name Pulmonary microvascular endothelial cells
Organism Mus musculus
Characteristics sirna: siCYP1B1
estrogen: vehicle
Treatment protocol Transfected with 5 ul of 10 uM stock scrambled or CYP1B1 siRNA using Lipofectamine 2000 in Optimem media (media changed 2 hours before transfection). 24 hours after transfection, 1uM E2 or 1uM 16aOHE added for 24 hours in 5% serum
Growth protocol 60 mm dishes seeded w 1.6x10^6 cells, cultured in EGM-2+5% FBS
Extracted molecule total RNA
Extraction protocol RNEasy 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 2000
 
Data processing Partek Flow platform used for data processing
Tophat 2 was used to align reads to the mm10 genome build
Reads were quantified to mm10 using the Partek E/M annotation model
Reads were normalized to counts per million (CPM) with 0.0001 added to the result.
Genome_build: mm10
Supplementary_files_format_and_content: Text file including CPM for each sample (in columns) and gene (in rows)
 
Submission date Feb 02, 2021
Last update date Feb 01, 2024
Contact name James West
E-mail(s) j.west@vanderbilt.edu
Organization name Vanderbilt University
Department Medicine
Lab Pulmonary
Street address 4200 E 9TH Ave, Box B133
City Nashville
State/province TN
ZIP/Postal code 37201
Country USA
 
Platform ID GPL13112
Series (1)
GSE166006 Effect of CYP1B1 inhibition and estrogens on pulmonary vascular smooth muscle cells
Relations
BioSample SAMN17763341
SRA SRX10006735

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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