|
Status |
Public on Apr 23, 2024 |
Title |
high fat diet control replicate 3 |
Sample type |
SRA |
|
|
Source name |
liver
|
Organism |
Mus musculus |
Characteristics |
treatment: high fat diet, control Sex: male strain: C57Bl/6J
|
Growth protocol |
Male C57Bl/6J mice were fed a high fat diet (HFD, 42% kCal from fat) for 12 weeks and exposed to a single oral gavage of vehicle control (corn oil), Aroclor1260 (20 mg/kg), PCB126 (20 µg/kg), or the combination of the doses of Aroclor1260 + PCB126.
|
Extracted molecule |
total RNA |
Extraction protocol |
miRNA was isolated from five mouse livers/experimental exposure using Qiagen miRNA kits. Libraries were prepared from 1 µg of mouse liver RNA using the QIAseq miRNA Library Kit (QIAGEN Cat. No. 331502), following manufacturer’s instructions.
|
|
|
Library strategy |
miRNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
HFDcontrol_Rep3
|
Data processing |
low quality sequence data and adapter sequences were trimmed using Trimmomatic v0.33 trimmed sequences were aligned to the genome using Mirdeep2 v0.0.7 mature miRNAs were quantified using Mirdeep2 v0.0.7 Genome_build: mm10
|
|
|
Submission date |
Jan 31, 2022 |
Last update date |
Apr 23, 2024 |
Contact name |
Eric Christian Rouchka |
E-mail(s) |
eric.rouchka@louisville.edu
|
Organization name |
University of Louisville
|
Department |
Biochemistry and Molecular Genetics
|
Lab |
KY INBRE Bioinformatics Core
|
Street address |
522 East Gray Street
|
City |
Louisville |
State/province |
Kentucky |
ZIP/Postal code |
40292 |
Country |
USA |
|
|
Platform ID |
GPL19057 |
Series (1) |
GSE195829 |
miRNA seq mouse liver HFD, PCB126, Aroclor1260 exposure |
|
Relations |
BioSample |
SAMN25520222 |
SRA |
SRX13999459 |