|
| Status |
Public on Apr 05, 2022 |
| Title |
Wy14,643-Ppara-/-2 (3 mouse liver mix) |
| Sample type |
SRA |
| |
|
| Source name |
Wy14,643-Ppara-/-
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6 and SV129 mixed
age: 8 weeks old
genotype/variation: Ppara-null (Ppara-/-)
treatment: PPARA agonist (Wy14,643)
tissue: liver
|
| Treatment protocol |
Mice were fed with either a normal diet, a 0.1% Wy14,643-chow diet or a 0.5% Fenofibrate-chow diet for 48 houre.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extrated from euthanized mouse livers. RNeasy plus mini kit (Qiagen) was used for preparing high purity RNA.
Libraries were prepared according to Illumina's instructions accompanying the TruSeq Stranded mRNA Library Prep.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Wy14,643-Ppara-:-2_3 mouse liver mix_KO_WY_2_S20
|
| Data processing |
Basecalling was performed by Illumina RTA 1.18.61. Demultiplexing was performed by Bcl2fastq v2.17.
Filtering (Adaptor and quality) was performed by Trimmomatic 0.30
Alignment was performed by TopHat v2.0.8
RNA Statistics and Duplication Statistics were performed by Picard 1.84
Insert Size Statistics was performed by RseQC 2.3.5
raw counts, RPKM values, and the associated statistical analyses by Qiagen CLC Genomics Workbench software
Genome_build: mm10
|
| |
|
| Submission date |
Jul 12, 2020 |
| Last update date |
Apr 05, 2022 |
| Contact name |
Frank J. Gonzalez |
| E-mail(s) |
[email protected]
|
| Organization name |
National Institutes of Health
|
| Department |
National Cancer Institute
|
| Lab |
Laboratory of Metabolism
|
| Street address |
37 Convent Drive. Bldg37/Rm3106
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE154275 |
Expression profiling in liver of wild type and Ppara-null mice treated with PPARA agonists [RNA-seq] |
| GSE154277 |
Gene repression through epigenetic modulation by PPARA enhances hepatocellular proliferation |
|
| Relations |
| BioSample |
SAMN15514186 |
| SRA |
SRX8715524 |
