|
| Status |
Public on Jun 12, 2017 |
| Title |
Normal diet_mRNA_3 |
| Sample type |
SRA |
| |
|
| Source name |
Normal diet_epididymal adipose tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
gender: male
age: 17 weeks
treatment: Normal diet
tissue: epididymal adipose tissue
|
| Treatment protocol |
At 5 weeks of age, they were randomly divided into 4 groups of 10 mice per each group and fed a normal diet (ND), high-fat diet (HFD), HFD + 0.25% (w/w) green tea ethanol extract (GT), HFD + 3% (w/w) Taeeumjowitang (TJ) for 12 weeks
|
| Growth protocol |
Forty male C57BL/6J mice (four-week-old, male) were obtained from the Jackson Laboratories (Bar Harbor, ME, USA). All mice were individually housed under a constant temperature (24°C) and 12-h light/dark cycle and, fed a normal chow diet for acclimation for 1 week after arrival.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the adipose tissue using TRIZOL reagent (Invitrogen Life Technologies, NY) according to the manufacturer’s instructions. Quality control was performed with Agilent Bioanalyzer.
Libraries were constructed from mRNA using the Illumina TruSeq RNA Sample Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
e_ND_3
|
| Data processing |
Illumina CASAVA 1.8.2 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence and low-quality sequence
Mapped to M. musculus whole genome using STAR v2.4.0
Transcripts were assembled and quantitated using Cufflinks v2.1.1
Genome_build: M. musculus Ensembl 72
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for "ND","HFD", "GT" and "TJ" sample.
|
| |
|
| Submission date |
Jul 31, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Ji-Young Choi |
| Organization name |
Kyungpook National University
|
| Department |
Food Sciences and Nutrition
|
| Street address |
80 Daehakro
|
| City |
Daegu |
| ZIP/Postal code |
702-701 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE71586 |
Multiple targeted metabolic effects of an oriental herb medicine “Taeeumjowuitang” with transcriptional response in diet-induced obesity; comparison with green tea extract |
|
| Relations |
| BioSample |
SAMN03946085 |
| SRA |
SRX1126069 |
