|
| Status |
Public on Jan 22, 2020 |
| Title |
HFHS_Curcumin3 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
model: Mice fed with high fat high sugar diet for 14 weeks
tissue: Liver
|
| Treatment protocol |
Mice were fed with high fat high sugar diet for 14 weeks and groups of mice were treated with either curcumin liposomes or calcitriol liposomes at week 12 and week 13.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA is extracted from flash frozen livers using RNeasy mini kit (Qiagen). Quality and quantity of RNA was estimated either using Bioanalyzer (Agilent Technologies).
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Reads were aligned to the reference mouse genome GRCm38 with STAR (version 2.4.0d).
Gene read counts were quantified against the GENCODE gene model (version M6).
Analysis and differential expression testing was performed with the DESeq2 (version 1.8.1)
Bioconductor package. R package (version 3.2.1) was used to further analysis.
Genome_build: md5
Supplementary_files_format_and_content: Tab-delimited text files include log transformed values for each sample
|
| |
|
| Submission date |
Feb 07, 2017 |
| Last update date |
Jan 22, 2020 |
| Contact name |
Muralidhara Rao Maradana |
| E-mail(s) |
m.maradana@uq.edu.au
|
| Phone |
+61426410837
|
| Organization name |
The University of Queensland
|
| Lab |
Ranjeny Thomas Lab
|
| Street address |
37 Kent St, Woolloongabba
|
| City |
Brisbane |
| State/province |
Queensland |
| ZIP/Postal code |
4102 |
| Country |
Australia |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE94593 |
RNAseq of livers of mice fed high fat high sugar diet and either untreated or treated with curcumin liposomes or calcitriol liposomes |
| GSE94594 |
NAFLD model |
|
| Relations |
| BioSample |
SAMN06309624 |
| SRA |
SRX2542158 |
