Transcriptomic alterations including p53 pathway dysregulation prime DNMT3A mutant cells for transformation
RNA-seq (gene expression) · mouse · 13 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 13 samples: 4 × Untreated Dnmt3a mutant, vs 4 × Untreated wild type, vs 3 × Irradiated Dnmt3a mutant, vs 2 × Irradiated wild type,Groups 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
- Transcriptomic changes including p53 dysregulation prime DNMT3A mutant cells for transformationEMBO reports · 2025
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 GSE275532_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1151635 and SRA study SRP528302. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 3 samples read as cases, 2 as controls.
How we read this: 4 replicated groups read from 13 sample titles; they account for 13 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.
- GSM8479060 Untreated Dnmt3a mutant, replicate 1 Untreated Dnmt3a mutant,
- GSM8479061 Untreated wild type, replicate 1 Untreated wild type,
- GSM8479062 Untreated wild type, replicate 2 Untreated wild type,
- GSM8479063 Untreated Dnmt3a mutant, replicate 2 Untreated Dnmt3a mutant,
- GSM8479064 Untreated Dnmt3a mutant, replicate 3 Untreated Dnmt3a mutant,
- GSM8479065 Untreated wild type, replicate 3 Untreated wild type,
- GSM8479066 Untreated Dnmt3a mutant, replicate 4 Untreated Dnmt3a mutant,
- GSM8479067 Untreated wild type, replicate 4 Untreated wild type,
- GSM8479068 Irradiated Dnmt3a mutant, replicate 1 Irradiated Dnmt3a mutan…
- GSM8479069 Irradiated wild type, replicate 1 Irradiated wild type,
- GSM8479070 Irradiated Dnmt3a mutant, replicate 2 Irradiated Dnmt3a mutan…
- GSM8479071 Irradiated wild type, replicate 2 Irradiated wild type,
- GSM8479072 Irradiated Dnmt3a mutant, replicate 3 Irradiated Dnmt3a mutan…
- GSE272266 Sex differences in DNMT3A-mutant clonal hematopoiesis and the effects of estrogen [scRNA-Seq] 20 samples shares dnmt3a, mutant
- GSE259404 Mitochondrial metabolism sustains DNMT3A-R882-mutant clonal haematopoiesis 12 samples shares dnmt3a, mutant
- GSE278208 STING Mediates Increased Self-Renewal and Lineage Skewing in DNMT3A-Mutated Hematopoietic Stem/Progenitor Cells 40 samples shares dnmt3a
- GSE247014 Cancer-associated DNA Hypermethylation of Polycomb Targets Requires DNMT3A Dual Recognition of histone H2AK119 Ubiquitination and the Nucleosome Acidic Patch [RNA-Seq] 22 samples shares dnmt3a
- GSE232630 Dnmt3a1 regulates memory formation via the downstram target Nrp1 16 samples shares dnmt3a
- GSE338899 In vivo CRISPR screens identify dual functions of DNMT3A in mediating tumor immune evasion 12 samples shares dnmt3a
- GSE291910 Dnmt3a-dependent de novo DNA methylation enforces lineage commitment and preserves functionality of memory Th1 and Tfh cells [RNA-seq] 12 samples shares dnmt3a
- GSE305395 PGC-1alpha pathway dysregulation disrupts myofiber specification in a mouse model of SBMA [AR113Q RNA-Seq] 27 samples shares dysregulation
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.