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| Status |
Public on Oct 03, 2023 |
| Title |
F2, 70% ad lib, Control GP16.058 |
| Sample type |
SRA |
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| Source name |
Carotid artery
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| Organism |
Cavia porcellus |
| Characteristics |
tissue: Carotid artery
cell type: endothelial cells
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| 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.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
F2, 70% ad lib, Control
generation, maternal diet, offspring diet
GP16.058
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| 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
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| Submission date |
Sep 28, 2023 |
| Last update date |
Oct 03, 2023 |
| Contact name |
Hillary Le |
| E-mail(s) |
lehi@ohsu.edu
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| Organization name |
Oregon Health & Science University
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| Street address |
3303 S Bond Ave
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| City |
PORTLAND |
| State/province |
OR |
| ZIP/Postal code |
97239 |
| Country |
USA |
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| 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. |
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| Relations |
| BioSample |
SAMN37595429 |
| SRA |
SRX21923859 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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