Macrophage histone lactylation during ischemia induced-muscle regeneration [CUT&Tag]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- 16 samples: 8 conditions, mostly in duplicateGroups 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
- Histone lactylation in macrophages is predictive for gene expression changes during ischemia induced-muscle regenerationMolecular metabolism · 2024
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 GSE254129_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 PRJNA1068610 and SRA study SRP485735. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8033699 D2_H3K18la_1 D2_H3K18la
- GSM8033700 D2_H3K18la_2 D2_H3K18la
- GSM8033701 D4_H3K18la_1 D4_H3K18la
- GSM8033702 D4_H3K18la_2 D4_H3K18la
- GSM8033703 D2_H3K4me3_1 D2_H3K4me3
- GSM8033704 D2_H3K4me3_2 D2_H3K4me3
- GSM8033705 D4_H3K4me3_1 D4_H3K4me3
- GSM8033706 D4_H3K4me3_2 D4_H3K4me3
- GSM8033707 D2_H3K27ac_1 D2_H3K27ac
- GSM8033708 D2_H3K27ac_2 D2_H3K27ac
- GSM8033709 D4_H3K27ac_1 D4_H3K27ac
- GSM8033710 D4_H3K27ac_2 D4_H3K27ac
- GSM8033711 D2_H3K27me3_1 D2_H3K27me3
- GSM8033712 D2_H3K27me3_2 D2_H3K27me3
- GSM8033713 D4_H3K27me3_1 D4_H3K27me3
- GSM8033714 D4_H3K27me3_2 D4_H3K27me3
- GSE291663 Lactate and histone H3K18 lactylation are associated with metabolic control of gene expression in the retina [explant_CUT&Tag] 10 samples shares cut, lactylation, histone
- GSE296797 CD38+CD93+ microglia and macrophages drive neuroinflammation through glycolysis-histone lactylation axis in multiple sclerosis model mice 17 samples shares lactylation, macrophage, histone
- GSE319420 Uncovering Critical Lysines in Mammalian Histone H3 with High-Throughput CRISPR Prime Editing [CUT&Tag] 26 samples shares cut, histone
- GSE281926 Classes of Lamin-Associated Domains are Defined by Distinct Patterns of Repressive Histone Methylation [CUT&Tag] 18 samples shares cut, histone
- GSE275296 H3K36 methylation regulates cell plasticity and regeneration in the intestinal epithelium [cutandtag_enzyme_profiling] 12 samples shares cut, regeneration
- GSE255571 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 [Mouse CUT&Tag] 10 samples shares cut, histone
- GSE233811 Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemia [bulk RNA-Seq] 48 samples shares cut, ischemia
- GSE239287 Single-cell transcriptome sequencing of macrophages in acute kidney injury(AKI) to chronic kidney dieases(CKD) 17 samples shares cut, macrophage
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.