Macrophage peroxisomes guide alveolar regeneration and limit post-acute sequelae of SARS-CoV-2 infection (PASC).
RNA-seq (gene expression) · mouse · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 6 × C) vs 3 × WT-Mock vs 3 × PEX5-KO-MockGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Macrophage peroxisomes guide alveolar regeneration and limit SARS-CoV-2 tissue sequelaeScience (New York, N.Y.) · 2025
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE281262_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1182823 and SRA study SRP543651. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 replicated groups read from 12 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8615842 WT-Mock-1 WT-Mock
- GSM8615843 WT-Mock-2 WT-Mock
- GSM8615844 WT-Mock-3 WT-Mock
- GSM8615845 PEX5-KO-Mock-1 PEX5-KO-Mock
- GSM8615846 PEX5-KO-Mock-2 PEX5-KO-Mock
- GSM8615847 PEX5-KO-Mock-3 PEX5-KO-Mock
- GSM8615848 WT-Poly(I:C)-1 C)
- GSM8615849 WT-Poly(I:C)-2 C)
- GSM8615850 WT-Poly(I:C)-3 C)
- GSM8615851 PEX5-KO-Poly(I:C)-1 C)
- GSM8615852 PEX5-KO-Poly(I:C)-2 C)
- GSM8615853 PEX5-KO-Poly(I:C)-3 C)
- GSE319684 Timecourse of FACS sorted Ly6C+ monocytes, tissue resident alveolar macrophages (trAMs), monocyte derived alveolar macrophages (bmAMs) and epithelial cells from SARS-CoV-2 (maVie16) vs. IAV (PR8) infected mouse lungs 176 samples shares sars-cov-2, macrophage, alveolar
- GSE269634 Triggering AHR resolves TGF-β1 induced fibroblast activation and promotes AT1 cell regeneration in alveolar organoids 32 samples shares regeneration, alveolar
- GSE247505 Sustained NF-kB activation allows mutant alveolar stem cells to co-opt a regeneration program for tumor initiation 20 samples shares regeneration, alveolar
- GSE247504 Sustained NF-kB activation allows mutant alveolar stem cells to co-opt a regeneration program for tumor initiation [Expt2] 10 samples shares regeneration, alveolar
- GSE263879 Lipid influx enforces liver regeneration through the recruitment of CD36+ macrophages (scRNA-Seq and RNA-Seq) 10 samples shares regeneration, macrophage
- GSE254129 Macrophage histone lactylation during ischemia induced-muscle regeneration [CUT&Tag] 16 samples shares regeneration, macrophage
- GSE315893 Characterization of Subchronic Lung and Brain Consequences Caused by Mouse-Adapted SARS-CoV-2 and Influenza A Infection of C57BL6 mice 44 samples shares sars-cov-2
- GSE282408 Non-apoptotic caspase-8 is critical for orchestrating exaggerated inflammation during severe SARS-CoV-2 infection 30 samples shares sars-cov-2
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.