Rat mediobasal hypothalamus — EED overexpression (bulk RNA-seq)
Rattus norvegicus · Whole hypothalamus · bulk RNA-seq
Selected data and study scope
This dataset contains bulk RNA-seq data from Rattus norvegicus, sampled from whole hypothalamus. The default comparison examines gene expression in EED-overexpressing lentivirus relative to GFP lentiviral control.
The explorer includes 1 track and 1 comparison for this dataset.
The default track, Mediobasal hypothalamus (MBH), includes 4 GFP lentiviral control samples and 4 EED-overexpressing lentivirus 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. Rat mediobasal hypothalamus — EED overexpression (bulk RNA-seq); all 1 registered contrasts on default track mbh
Experimental design passed. Rat mediobasal hypothalamus — EED overexpression (bulk RNA-seq); all 1 registered contrasts on default track mbh
Author concordance passed. Matched gene effects; eed_overexpression_vs_gfp. P values and FDR are contextual. Numerical acceptance: strong correlation and 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
P28 female Sprague-Dawley-rat mediobasal hypothalamus after P21 stereotaxic delivery of GFP-control or EED-overexpressing lentivirus, four terminal animal profiles per arm supported by the sample-specific GEO descriptions and primary methods. The official 32,662-gene integer count matrix is modeled without rounding (PMID 33479437; GSE102471)
Source publication
Wright H, Aylwin CF, Toro CA, Ojeda SR, Lomniczi A
Scientific reports · 2021
Repository study title
Polycomb represses a gene network controlling puberty via modulation of histone demethylase Kdm6b expression
The original study authors produced these data. HypoExplorer displays selected data and analyses that may cover only part of the study.
Comparisons in HypoExplorer
EED-overexpressing lentivirus vs GFP lentiviral control · 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 | GFP lentiviral control n | EED-overexpressing lentivirus n |
|---|---|---|---|
| Mediobasal hypothalamus (MBH) | 13,226 | 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.