PPARg T166 phosphorylation-mediated lipid synthesis sustains the reparative function of macrophages during tissue repair
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 23 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 23 samples: 6 × Skin Macrophages 6 dpi, WT, vs 6 × Skin Macrophages 6 dpi, TA, vs 3 × BMDMs, WT, RNA-seq vs 3 × BMDMs, TA, RNA-seqGroups 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
- Lipid synthesis, triggered by PPARγ T166 dephosphorylation, sustains reparative function of macrophages during tissue repairNature communications · 2024
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 GSE269834_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1123756 and SRA study SRP482896. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 4 replicated groups read from 23 sample titles; they account for 18 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.
- GSM8010066 BMDMs, WT, RNA-seq rep1 BMDMs, WT, RNA-seq
- GSM8010067 BMDMs, WT, RNA-seq rep2 BMDMs, WT, RNA-seq
- GSM8010068 BMDMs, WT, RNA-seq rep3 BMDMs, WT, RNA-seq
- GSM8010069 BMDMs, TA, RNA-seq rep1 BMDMs, TA, RNA-seq
- GSM8010070 BMDMs, TA, RNA-seq rep2 BMDMs, TA, RNA-seq
- GSM8010071 BMDMs, TA, RNA-seq rep3 BMDMs, TA, RNA-seq
- GSM8010072 BMDM, PPARg WT, ChIP
- GSM8010073 BMDM, PPARg WT, Input
- GSM8010074 BMDM, PPARg T166A, ChIP
- GSM8010075 BMDM, PPARg T166A, Input
- GSM8328682 Skin Macrophages 6 dpi, WT, rep1 Skin Macrophages 6 dpi,…
- GSM8328683 Skin Macrophages 6 dpi, WT, rep2 Skin Macrophages 6 dpi,…
- GSM8328684 Skin Macrophages 6 dpi, WT, rep3 Skin Macrophages 6 dpi,…
- GSM8328685 Skin Macrophages 6 dpi, WT, rep4 Skin Macrophages 6 dpi,…
- GSM8328686 Skin Macrophages 6 dpi, WT, rep5 Skin Macrophages 6 dpi,…
- GSM8328687 Skin Macrophages 6 dpi, WT, rep6 Skin Macrophages 6 dpi,…
- GSM8328688 Skin Macrophages 6 dpi, TA, rep1 Skin Macrophages 6 dpi,…
- GSM8328689 Skin Macrophages 6 dpi, TA, rep2 Skin Macrophages 6 dpi,…
- GSM8328690 Skin Macrophages 6 dpi, TA, rep3 Skin Macrophages 6 dpi,…
- GSM8328691 Skin Macrophages 6 dpi, TA, rep4 Skin Macrophages 6 dpi,…
- GSM8328692 Skin Macrophages 6 dpi, TA, rep5 Skin Macrophages 6 dpi,…
- GSM8328693 Skin Macrophages 6 dpi, TA, rep6 Skin Macrophages 6 dpi,…
- GSM8328727 BMDM, STAT3
- GSE280514 Spatially-restricted and ontogenically-distinct hepatic macrophages are required for tissue repair. 48 samples shares macrophages, repair
- GSE280652 Spatially-restricted and ontogenically-distinct hepatic macrophages are required for tissue repair. 42 samples shares macrophages, repair
- GSE290194 Repair-Associated Macrophages Increase after Early-phase Microglia Attenuation to Promote Ischemic Stroke Recovery [scRNA-Seq] 16 samples shares macrophages, repair
- GSE285794 Cancer cell-derived arginine fuels polyamine biosynthesis in tumor-associated macrophages to promote immune evasion 12 samples shares macrophages, synthesis
- GSE263892 Single-cell analysis reveals Mycobacterium tuberculosis ESX-1-mediated accumulation of permissive macrophages in infected mouse lungs 6078 samples shares macrophages
- GSE272755 Transcriptional effects of lysosome stress on mouse bone marrow-derived macrophages and primary microglia 263 samples shares macrophages
- 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 macrophages
- GSE300757 Efferocytosis induces proangiogenic function and chromatin remodeling in tumor-associated macrophages 127 samples shares macrophages
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.