Mouse hypothalamus — Abi3 KO (bulk RNA-seq)
Mus musculus · Whole hypothalamus · bulk RNA-seq (QuantSeq)
Selected data and study scope
This dataset contains bulk RNA-seq (QuantSeq) data from Mus musculus, sampled from whole hypothalamus. The default comparison examines gene expression in Abi3 KO relative to WT.
The explorer includes 1 track and 1 comparison for this dataset.
The default track, Whole hypothalamus, includes 4 WT samples and 4 Abi3 KO 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 are CPM (TMM-normalized): counts per million on library sizes adjusted by the TMM factors of the study’s own edgeR fit. This scale adjusts for library size and composition, not gene length. Use it to inspect a feature across the samples in this analysis. CPM values are not absolute transcript counts.
Evidence and verification
Pipeline QC passed. Mouse hypothalamus — Abi3 KO (bulk RNA-seq); all 1 registered contrasts on default track hypothalamus
Experimental design passed. Mouse hypothalamus — Abi3 KO (bulk RNA-seq); all 1 registered contrasts on default track hypothalamus
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
Whole hypothalamus of 15-month male mice, Abi3-WT vs Abi3-locus knockout — Abi3 deletion drives obesity, lower energy expenditure and hypothalamic immune remodelling (brown-adipose arm dropped) (Smith et al., Front Aging Neurosci 2022, PMID 36620768; GSE212299)
Source publication
Smith DC, Karahan H, Wijeratne HRS, Al-Amin M, McCord B, Moon Y, et al.
Frontiers in aging neuroscience · 2022
Repository study title
Deletion of the Alzheimer’s disease risk associated Abi3 gene locus in mice results in obesity and systemic metabolic disruption
The original study authors produced these data. HypoExplorer displays selected data and analyses that may cover only part of the study.
Comparisons in HypoExplorer
Abi3 KO vs WT · 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 | WT n | Abi3 KO n |
|---|---|---|---|
| Whole hypothalamus | 13,040 | 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.