Mouse SCN — scheduled voluntary exercise
Mus musculus · Suprachiasmatic nucleus · bulk RNA-seq
Selected data and study scope
This dataset contains bulk RNA-seq data from Mus musculus, sampled from suprachiasmatic nucleus. The default comparison examines gene expression in Wild-type scheduled voluntary exercise relative to Wild-type without scheduled exercise.
The explorer includes 1 track and 1 comparison for this dataset.
The default track, Suprachiasmatic nucleus (LCM), includes 4 Wild-type without scheduled exercise samples and 4 Wild-type scheduled voluntary exercise samples in this comparison. These are analysis sample counts. Check the source for biological replication and pooling.
Interpretation and limitations
The measurement combines expression from the cells in the tissue sample. A difference in tissue expression alone does not identify which cell type contributes to it.
Expression values use log2(DESeq2-normalized count + 1). Keep this unit when exporting or comparing values. Values on other normalization scales are not directly interchangeable.
Evidence and verification
Pipeline QC passed. Mouse SCN — scheduled voluntary exercise; all 1 registered contrasts on default track scn
Experimental design passed. Mouse SCN — scheduled voluntary exercise; all 1 registered contrasts on default track scn
Author concordance not assessed. Author effect concordance has not been assessed
Pipeline QC can pass while experimental-design limitations remain. Read both assessments before interpreting results.
Open the dataset in the Explorer to read each check and its evidence. Author concordance compares effects for matched genes. It does not require identical author P values or FDR.
Read the analysis methods and interpretation guide and how to cite the source study and HypoExplorer. The source publication may include tissues, groups or comparisons beyond the data shown here.
Source study
Laser-microdissected SCN RNA-seq comparing four wild-type mice with scheduled voluntary exercise and four wild-type non-exercise controls. Vipr2-null arms are excluded; author DESeq2-normalized counts are transformed as log2(x+1) for limma (PMID 36866044; GSE207992)
Source publication
Hitrec T, Petit C, Cryer E, Muir C, Tal N, Fustin JM, et al.
iScience · 2023
Repository study title
Timed Exercise and Clocks: Does a Minimally Functional Suprachiasmatic Clock Support 24h Behavioral Rhythms?
The original study authors produced these data. HypoExplorer displays selected data and analyses that may cover only part of the study.
Comparisons in HypoExplorer
Wild-type scheduled voluntary exercise vs Wild-type without scheduled exercise · default
Positive differential-expression values indicate higher expression in the case group relative to the baseline. Check the comparison direction and study design when interpreting results.
Available tracks
| Track | Features | Wild-type without scheduled exercise n | Wild-type scheduled voluntary exercise n |
|---|---|---|---|
| Suprachiasmatic nucleus (LCM) | 24,839 | 4 | 4 |
Expression and analysis results
Open this dataset to inspect gene expression and differential-expression results across the available tracks. Pathway enrichment is also available. The pathway databases differ by dataset.
HypoExplorer is in beta testing. Features and analyses may change during testing. Review the original source, analysis methods and quality-control checks before using a result in research.