H3K9me3 controls epidermis development by repressing RNA Pol II activity on key promoters and enhancers [CUT&Run - Temporal]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 11 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
- 11 samples: 11 samples, each with a distinct title — no replicated groupsGroups 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
- H3K9me3 controls epidermis morphogenesis by regulating RNA Pol II dynamics at developmental promoters and enhancersNature communications · 2026
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 GSE318406_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 PRJNA1418679 and SRA study SRP674613. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 11 sample titles: 11 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.
- GSM9493993 BasalCells, E12.5, Embryo 1, IgG
- GSM9493994 BasalCells, E12.5, Embryo 2, H3K9me3
- GSM9493995 BasalCells, E12.5, Embryo 3, H3K9me3
- GSM9493996 BasalCells, E14.5, Embryo 1, IgG
- GSM9493997 BasalCells, E14.5, Embryo 2, H3K9me3
- GSM9493998 BasalCells, E14.5, Embryo 3, H3K9me3
- GSM9493999 BasalCells, E14.5, Embryo 4, H3K9me3
- GSM9494000 BasalCells, E16.5, Embryo 1, H3K9me3
- GSM9494001 BasalCells, E16.5, Embryo 2, H3K9me3
- GSM9494002 BasalCells, E16.5, Embryo 3, IgG
- GSM9494003 BasalCells, E16.5, Embryo 4, H3K9me3
- GSE336091 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [CUT&Tag] 48 samples shares cut, activity
- GSE261412 Acute hormonal signaling-induced 3D chromatin loop reorganization controls adipocyte thermogenesis [ChIP-Seq mouse, H3K27ac, H3K4me3, H2AZ] 24 samples shares cut, controls
- GSE295964 Transcription factor NFYA directs male meiotic entry by facilitating accessible chromatin at the promoters of genes expressed during meiosis [CUT&RUN] 13 samples shares cut, promoters
- GSE282802 KMT2D controls cerebellar granule cell differentiation by temporally activating neuronal transcriptional factor genes [CUT&RUN] 10 samples shares cut, controls
- GSE290849 Acute intervention reveals critical roles of BAF, KMT2D and p300 in MyoD binding on enhancers 143 samples shares cut, enhancers
- GSE294389 BMAL1 and YAP cooperate to hijack enhancers and promote inflammation in the aged epidermis 131 samples shares epidermis, enhancers
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares cut
- GSE297309 SKP1A-mediated degradation of PRC2 triggers activation of Polycomb-silenced gene [CUT&Tag] 108 samples shares cut
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.