Macrophage epigenetic memories of early life injury drive neonatal nociceptive priming.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 21 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
- 21 samples: 15 distinct titles, 3 of them repeatedGroups 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 memories of early-life injury drive neonatal nociceptive primingCell reports · 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 GSE224209_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 PRJNA930315 and SRA study SRP420401. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 21 sample titles: 15 distinct titles with little repetition. 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.
- GSM7017429 Day35,Day7-incised,replicate1
- GSM7017430 Day35,Day7-incised,replicate2
- GSM7017431 Day35,Day7-incised,replicate3
- GSM7017432 Day35,naïve,replicate1
- GSM7017433 Day35,naïve,replicate2
- GSM7017434 Day35,naïve,replicate3
- GSM7017435 Day7,naïve,replicate1
- GSM7017436 Day7,naïve,replicate2
- GSM7017437 Day7,naïve,replicate3
- GSM7017438 Day35,Day7-incised,replicate1 [RNA-Seq]
- GSM7017439 Day35,Day7-incised,replicate2 [RNA-Seq]
- GSM7017440 Day35,Day7-incised,replicate3 [RNA-Seq]
- GSM7017441 Day35,Day7-incised,replicate4 [RNA-Seq]
- GSM7017442 Day35,naïve,replicate1 [RNA-Seq]
- GSM7017443 Day35,naïve,replicate2 [RNA-Seq]
- GSM7017444 Day35,naïve,replicate3 [RNA-Seq]
- GSM7017445 Day35,naïve,replicate4 [RNA-Seq]
- GSM7017446 Day7,naïve,replicate1 [RNA-Seq]
- GSM7017447 Day7,naïve,replicate2 [RNA-Seq]
- GSM7017448 Day7,naïve,replicate3 [RNA-Seq]
- GSM7017449 Day7,naïve,replicate4 [RNA-Seq]
- GSE247970 Cell of origin epigenetic priming determines susceptibility to Tet2 oncogenic mutation 76 samples shares epigenetic, priming
- GSE280003 Gpnmb and Spp1 mark a conserved macrophage injury response masking fibrosis-specific programming in the lung 81 samples shares macrophage, injury
- GSE298002 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [CUT&Run] 38 samples shares epigenetic, priming
- GSE298001 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [ATAC-Seq] 36 samples shares epigenetic, priming
- GSE99296 α-ketoglutarate orchestrates macrophage activation through metabolic and epigenetic reprogramming 18 samples shares macrophage, epigenetic
- GSE239287 Single-cell transcriptome sequencing of macrophages in acute kidney injury(AKI) to chronic kidney dieases(CKD) 17 samples shares macrophage, injury
- GSE290194 Repair-Associated Macrophages Increase after Early-phase Microglia Attenuation to Promote Ischemic Stroke Recovery [scRNA-Seq] 16 samples shares macrophage, early
- GSE236580 Adipose tissue retains an epigenetic memory of obesity after weight loss 135 samples shares epigenetic
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.