|
| Status |
Public on Nov 10, 2023 |
| Title |
SD-HFD-rep1 |
| Sample type |
RNA |
| |
|
| Source name |
aorta, S1176D, HFD
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
genotype: eNOS S1176D+/+; Akt1-/-; ApoE-/-
diet type: Western Diet 4wks
|
| Treatment protocol |
eNOS S1176A ‘loss-of-function’ and eNOS S1176D ‘gain-of-function’ mice (Akt1;ApoE double knockout background) were maintained on a standard laboratory diet. At ~8wks of age, mice were fed either a standard laboratory diet or a high-fat, high-cholesterol Western Diet for 4weeks. Aortas were processed for mRNA collection.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the RNeasy Plus Mini Kit (Qiagen) according to the manufacturer’s instructions.
|
| Label |
n.a.
|
| Label protocol |
Unlabeled total mouse aorta tissue. RNA quality assessed via spectrophotometric readings (A260/280 ratio ~2.0). No further label/purification step necessary.
|
| |
|
| Hybridization protocol |
Gene expression profiling was performed using NanoString PanCancer Immune Profile Mouse and nCounter instrument (Yale University) according to the manufacturer’s instructions.
|
| Scan protocol |
Standard protocol
|
| Data processing |
NanoString data were normalized based on NanoString housekeeping probes using the nCounter Advanced Analysis Software. Normalized expression counts were extracted from the NanoString nSolver software for further data analyses using Qlucore Omics Explorer® (Version 3.8). Samples were log2 transformed in Qlucore and assigned into their respective groups. Best clustering of the samples was achieved with multi-group (ANOVA) comparison of all 4 groups at a p-value ≤ 0.05 (corresponding q-value ≤ 0.125). No fold change cutoffs imposed given the limited number of input probes. Differential gene expression and pathway enrichment were considered significant with an adjusted p-value of ≤0.05.
|
| |
|
| Submission date |
Sep 12, 2023 |
| Last update date |
Nov 10, 2023 |
| Contact name |
Monica Lee |
| E-mail(s) |
monicayl@uic.edu
|
| Organization name |
University of Illinois at Chicago
|
| Street address |
835 S Wolcott
|
| City |
Chicago |
| ZIP/Postal code |
60612 |
| Country |
USA |
| |
|
| Platform ID |
GPL30298 |
| Series (1) |
| GSE243000 |
Gene expression for eNOS S1176 mutant mice |
|
