|
| Status |
Public on Apr 23, 2024 |
| Title |
high fat diet + PCB126, replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Mus musculus |
| Characteristics |
treatment: high fat diet + PCB126
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 |
HFDPCB_Rep2
|
| 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 |
SAMN25520213 |
| SRA |
SRX13999468 |
