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Sample GSM7813180 Query DataSets for GSM7813180
Status Public on Oct 03, 2023
Title F1, 70% ad lib, High Fat GP16.016
Sample type SRA
 
Source name Carotid artery
Organism Cavia porcellus
Characteristics tissue: Carotid artery
cell type: endothelial cells
Extracted molecule polyA RNA
Extraction protocol At 20 weeks of age, 3 animals each from PC-C, PC-H, PR-C, PR-H, PC-C-C, PC-C-H, PR-C-C, PR-C-H were euthanized with intravenous overdose of commercial barbituate (Somnasol, 390mg/ml pentobarbital sodium). A carotid artery was rapidly cannulated in situ. The vessel was flushed with 1X PBS (Gibco) to remove blood, followed by 100uL of TRIzol Reagent (Invitrogen) to collect endothelial cell contents.
RNA was isolated using RNeasy Micro kit (Qiagen) and quality was assessed using Agilent 2100 Bioanalyzer with RNA 6000 Pico chip by the OHSU Gene Profiling Shared Resource. All samples had an RNA Integrity Number (RIN) score of above 5.0. Samples were stored at -80C until sequencing.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description F1, 70% ad lib, High Fat
generation, maternal diet, offspring diet
GP16.016
Data processing FastQC for quality check
Trimmomatic for trimming
STAR for alignment
DESeq2 for differential gene analysis
Assembly: CavPor3
Supplementary files format and content: GP_RNAseq_Processed_file.csv is the normalized counts following Deseq2 differential gene expression analysis
 
Submission date Sep 28, 2023
Last update date Oct 03, 2023
Contact name Hillary Le
E-mail(s) lehi@ohsu.edu
Organization name Oregon Health & Science University
Street address 3303 S Bond Ave
City PORTLAND
State/province OR
ZIP/Postal code 97239
Country USA
 
Platform ID GPL28437
Series (1)
GSE244302 Development of a novel guinea pig model producing transgenerational endothelial transcriptional changes driven by maternal food restriction and a second metabolic insult of high-fat diet.
Relations
BioSample SAMN37595449
SRA SRX21923839

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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