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Sample GSM3333307 Query DataSets for GSM3333307
Status Public on Aug 16, 2018
Title Pre LPS (time 0h) 1
Sample type SRA
 
Source name Lung parenchymal homogenate
Organism Homo sapiens
Characteristics group: Pre LPS
Treatment protocol For LPS injury, E. coli 055:B5 endotoxin was diluted in 20ml sterile PBS at 5 mg/kg ideal body weight for the donor and infused into the pulmonary arterial limb of the circuit over 5 min via automated syringe pump at T=1 hour. BC1215 was dissolved in 50ml sterile PBS and BC1215 or PBS alone was administered via a bronchoscope with 2-3 ml of solution directed into each segmental bronchus immediately following T-2 hour BAL and biopsy collection.
Extracted molecule total RNA
Extraction protocol Tissue was placed in RNA later, then RNA extracted using Qiazol
TuruSeq stranded mRNA (PolyA+)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description Pre_LPS_1
Data processing Trimmomatic (Version 0.36)
TopHat (Version 2.1.1)
Cufflinks (Version 2.2.1)
Genome_build: GRCH37
Supplementary_files_format_and_content: Cufflinks (Version 2.2.1)
 
Submission date Aug 15, 2018
Last update date Aug 16, 2018
Contact name Josiah Radder
Organization name University of Pittsburgh
Department Pulmonary, Allergy, and Critical Care Medicine
Street address 200 Lothrop St
City Pittsburgh
State/province Pennsylvania
ZIP/Postal code 15224
Country USA
 
Platform ID GPL21290
Series (1)
GSE118566 Ex Vivo Lung Perfusion as a Human Platform for Preclinical Small Molecule Testing
Relations
BioSample SAMN09836869
SRA SRX4553852

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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