Disruption of broad H3K9me3 domains and chromatin folding regulates oncogenic transcriptional milieu in ATRX-deficient gliomas [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 14 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
- 14 samples: 14 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
- ATRX inactivation disrupts global chromatin state and topology to dysregulate neurodevelopmental pathways in glioma pathogenesisNucleic acids research · 2026
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 GSE309141_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 PRJNA1334217 and SRA study SRP626973. 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 14 sample titles: 14 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.
- GSM9262110 p53knockout and ATRXwildtype_mNPC H3K4me1 ChIP-seq
- GSM9262111 p53knockout and ATRXwildtype_mNPC H3K9me3 ChIP-seq
- GSM9262112 p53knockout and ATRXwildtype_mNPC H3K27ac ChIP-seq
- GSM9262113 p53knockout and ATRXwildtype_mNPC H3K79me2 ChIP-seq
- GSM9262114 p53knockout and ATRXwildtype_mNPC H3K4me3 ChIP-seq
- GSM9262115 p53knockout and ATRXwildtype_mNPC H3K27me3 ChIP-seq
- GSM9262116 p53knockout and ATRXwildtype_mNPC input ChIP-seq
- GSM9262117 p53knockout and ATRXknockout_mNPC H3K4me1 ChIP-seq
- GSM9262118 p53knockout and ATRXknockout_mNPC H3K9me3 ChIP-seq
- GSM9262119 p53knockout and ATRXknockout_mNPC H3K27ac ChIP-seq
- GSM9262120 p53knockout and ATRXknockout_mNPC H3K79me2 ChIP-seq
- GSM9262121 p53knockout and ATRXknockout_mNPC H3K4me3 ChIP-seq
- GSM9262122 p53knockout and ATRXknockout_mNPC H3K27me3 ChIP-seq
- GSM9262123 p53knockout and ATRXknockout_mNPC input ChIP-seq
- GSE304113 Establishment of sex-specific liver transcriptomes and H3K9me3 profiles during sexual maturity: the impact of maternal obesity [ChIP-seq] 36 samples shares h3k9me3, chip-seq
- GSE324864 HP1B and H3K9me3 Regulate Olfactory Receptor Choice and 2 Transcriptional Identity [ChIP-seq] 28 samples shares h3k9me3, chip-seq
- GSE233039 The H3K9me3 heterochromatin integrity and function are sustained by H3K9me3 methyltransferases-HP1 dependencies [ATAC-Seq] 18 samples shares h3k9me3, chromatin
- GSE272524 Chromatin-dependent motif syntax defines differentiation trajectories [ChIP-seq] 76 samples shares chromatin, chip-seq
- GSE294085 SIRT6 Overexpression Counteracts Chromatin Aging [ChIP-Seq] 74 samples shares chromatin, chip-seq
- GSE295340 Polycomb Chromatin Topology Enables Long-Range Enhancer Recruitment during Craniofacial Development [ChIP-seq] 42 samples shares chromatin, chip-seq
- GSE266022 Nrf2-mediated chromatin activation of hyperosmotic response genes attenuates heat-induced renal injury [ChIP-seq] 24 samples shares chromatin, chip-seq
- GSE292285 Depletion of lamin-associated polypeptide 2 alpha leads to chromatin reorganization and redistribution of A-type lamins to open genomic regions [ChIP-seq] 22 samples shares chromatin, chip-seq
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.