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SRX6476550: GSM3956037: Primary hepatocytes, Vehicle, 24 h, MS-184; Rattus norvegicus; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 34.9M spots, 5.2G bases, 2Gb downloads

Submitted by: NCBI (GEO)
Study: In vitro transcriptomic responses to thioacetamide-S-oxide exposure in Sprague-Dawley rat primary hepatocytes, renal tube epithelial, and cardiomyocytes
show Abstracthide Abstract
In this study we tested the ability to predict organ injury endpoints from in vitro transcriptomics responses at early time points (9 and 24 hours) after to thioacetamide-S-oxide treatment, the toxic metabolite of thioacetamide. Thioacetamide, an organosulfur compound, have been extensively used in animal studies as a hepatotoxin and carcinogen for its ability to cause acute liver damage. Overall design: We treated three-cell types from Sprague-Dawley rats, primary hepatocytes (vehicle, low (0.025 mM), or high (0.125 mM) dose), renal tube epithelial cells (vehicle, low (0.125 mM), or high (0.500 mM) dose), and cardiomyocytes (vehicle, low (0.50 mM), or high (1.50 mM) dose) with thioacetamide-S-oxide. RNA-seq data were collected 9 and 24 hours after application of vehicle or thioacetamide-S-oxide.
Sample: Primary hepatocytes, Vehicle, 24 h, MS-184
SAMN12323963 • SRS5125780 • All experiments • All runs
Library:
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Total RNA was isolated from culture cells using TRIzol Reagent (Thermo Fisher Scientific, Waltham, MA) and the direct-zol RNA MiniPrep kit (Zymo Research, Irvine, CA). The isolated RNA samples were then submitted to the Vanderbilt University Medical Center VANTAGE Core (Nashville, TN) for RNA quality determination and sequencing. Total RNA quality was assessed using a 2100 Bioanalyzer (Agilent, Santa Clara, CA). At least 200 ng of DNase-treated total RNA with high RNA integrity was used to generate poly-A-enriched mRNA libraries, using KAPA Stranded mRNA sample kits with indexed adaptors (New England BioLabs). Library quality was assessed using the 2100 Bioanalyzer (Agilent), and libraries were quantitated using KAPA library Quantification kits (KAPA Biosystems). Pooled libraries were subjected to 150-bp double-end sequencing according to the manufacturer's protocol (Illumina NovaSeq6000). Bcl2fastq2 Conversion Software (Illumina) was used to generate de-multiplexed Fastq files.
Experiment attributes:
GEO Accession: GSM3956037
Links:
Runs: 1 run, 34.9M spots, 5.2G bases, 2Gb
Run# of Spots# of BasesSizePublished
SRR971881334,898,5855.2G2Gb2019-11-21

ID:
8577401

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