Pig hypothalamus — maternal PRRSV exposure
Sus scrofa · Whole hypothalamus · bulk RNA-seq
Selected data and study scope
This dataset contains bulk RNA-seq data from Sus scrofa, sampled from whole hypothalamus. The default comparison examines gene expression in Maternal PRRSV, offspring saline relative to Maternal control, offspring saline.
The explorer includes 1 track and 1 comparison for this dataset.
The default track, Whole hypothalamus, includes 21 Maternal control, offspring saline samples and 17 Maternal PRRSV, offspring saline 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(TPM + 1). Keep this unit when exporting or comparing values. Values on other normalization scales are not directly interchangeable.
Evidence and verification
Pipeline QC review needed. Pig hypothalamus — maternal PRRSV exposure; all 1 registered contrasts on default track hypothalamus
Experimental design review needed. Pig hypothalamus — maternal PRRSV exposure; 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 RNA-seq from 17 saline-challenged 60-day-old pigs exposed to maternal PRRSV immune activation versus 21 saline-challenged controls, adjusted for sex. Acute fasting and poly(I:C) offspring arms are excluded; GEO-defined TPM is transformed exactly as log2(TPM+1) for limma (PMID 38189117; GSE245146)
Source publication
Rodriguez-Zas SL, Nowak RA, Antonson AM, Rund L, Bhamidi S, Gomez AN, et al.
Physiological genomics · 2024
Repository study title
Evaluation of the effect of maternal immune activation and juvenile distress on hypothalamus of 60 day old pigs
The original study authors produced these data. HypoExplorer displays selected data and analyses that may cover only part of the study.
Comparisons in HypoExplorer
Maternal PRRSV, offspring saline vs Maternal control, offspring saline · 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 | Maternal control, offspring saline n | Maternal PRRSV, offspring saline n |
|---|---|---|---|
| Whole hypothalamus | 20,204 | 21 | 17 |
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.