Rat supraoptic nucleus — age-dependent transcriptome
Rattus norvegicus · Supraoptic nucleus · bulk RNA-seq
Selected data and study scope
This dataset contains bulk RNA-seq data from Rattus norvegicus, sampled from supraoptic nucleus. The default comparison examines gene expression in 125 days old relative to 35 days old.
The explorer includes 1 track and 1 comparison for this dataset.
The default track, Supraoptic nucleus, includes 4 35 days old samples and 4 125 days old 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. Rat supraoptic nucleus — age-dependent transcriptome; all 1 registered contrasts on default track son
Experimental design passed. Rat supraoptic nucleus — age-dependent transcriptome; all 1 registered contrasts on default track son
Author concordance passed. Matched gene effects; age_125d_vs_35d. P values and FDR are contextual. Numerical acceptance: matched-gene direction.
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
Supraoptic-nucleus RNA-seq comparing four 125-day with four 35-day male Sprague-Dawley-rat biological pools, each pooling four animals. Only RNA-seq SubSeries GSE231616 is retained from mixed SuperSeries GSE231617; its methylation SubSeries is excluded, and official DESeq2-normalized counts are analyzed as log2(x+1) (PMID 37711995; GSE231617)
Source publication
Thompson D, Odufuwa AE, Brissette CA, Watt JA
Frontiers in aging neuroscience · 2023
Repository study title
Transcriptome and Methylome of the Supraoptic Nucleus Provides Insights into the Age-dependent Loss of Neuronal Plasticity
The original study authors produced these data. HypoExplorer displays selected data and analyses that may cover only part of the study.
Comparisons in HypoExplorer
125 days old vs 35 days old · 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 | 35 days old n | 125 days old n |
|---|---|---|---|
| Supraoptic nucleus | 26,696 | 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.