TRIM28-dependent developmental heterogeneity determines cancer susceptibility through distinct epigenetic states
DNA methylation · mouse · 182 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Mus musculus (mouse)
- Samples
- 182 samples: 27 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
- TRIM28-dependent developmental heterogeneity determines cancer susceptibility through distinct epigenetic statesNature cancer · 2025
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 GSE262713_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 beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA1093044 and SRA study SRP499338. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 20 samples read as cases, 28 as controls.
How we read this: 27 replicated groups read from 182 sample titles; they account for 180 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.
- GSM7147999 WT_rep1 WT
- GSM7148000 WT_rep2 WT
- GSM7148001 WT_rep3 WT
- GSM7148002 WT_rep4 WT
- GSM7148003 WT_rep5 WT
- GSM7148004 WT_rep6 WT
- GSM7148005 WT_rep7 WT
- GSM7148006 Trim28_light_rep1 Trim28_light
- GSM7148007 Trim28_light_rep2 Trim28_light
- GSM7148008 Trim28_light_rep3 Trim28_light
- GSM7148009 Trim28_light_rep4 Trim28_light
- GSM7148010 Trim28_light_rep5 Trim28_light
- GSM7148011 Trim28_light_rep6 Trim28_light
- GSM7148012 Trim28_light_rep7 Trim28_light
- GSM7148013 Trim28_light_rep8 Trim28_light
- GSM7148014 Trim28_light_rep9 Trim28_light
- GSM7148015 Trim28_heavy_rep1 Trim28_heavy
- GSM7148016 Trim28_heavy_rep2 Trim28_heavy
- GSM7148017 Trim28_heavy_rep3 Trim28_heavy
- GSM7148018 Trim28_heavy_rep4 Trim28_heavy
- GSM7148019 Trim28_heavy_rep5 Trim28_heavy
- GSM7148020 Trim28_heavy_rep6 Trim28_heavy
- GSM7148021 Trim28_heavy_rep7 Trim28_heavy
- GSM7148022 Trim28_heavy_rep8 Trim28_heavy
- GSM7148023 Trim28_heavy_rep9 Trim28_heavy
- GSM7148024 Trim28_heavy_rep10 Trim28_heavy
- GSM7148025 Trim28_heavy_rep11 Trim28_heavy
- GSM7148026 Trim28_heavy_rep12 Trim28_heavy
- GSM7148027 Trim28_heavy_rep13 Trim28_heavy
- GSM7148028 Trim28_heavy_rep14 Trim28_heavy
- GSM7148029 Trim28_heavy_rep15 Trim28_heavy
- GSM7148030 Tp53_rep1 Tp53
- GSM7148031 Tp53_rep2 Tp53
- GSM7148032 Tp53_rep3 Tp53
- GSM7148033 Tp53_rep4 Tp53
- GSM7148034 Tp53_rep5 Tp53
- GSM7148035 Tp53_rep6 Tp53
- GSM7148036 Tp53_rep7 Tp53
- GSM7148037 Tp53_rep8 Tp53
- GSM7148038 Tp53_rep9 Tp53
+ 142 more — browse all 182 samples with per-sample file links →
- GSE263021 TRIM28-dependent developmental heterogeneity determines cancer susceptibility through distinct epigenetic states [RNA-seq - matched healthy and tumor tissues] 41 samples shares trim28-dependent, susceptibility, heterogeneity, determines, epigenetic, distinct, states
- GSE247970 Cell of origin epigenetic priming determines susceptibility to Tet2 oncogenic mutation 76 samples shares susceptibility, determines, epigenetic
- GSE247969 Cell of origin epigenetic priming determines susceptibility to Tet2 oncogenic mutation [bulk ATAC-seq] 56 samples shares susceptibility, determines, epigenetic
- GSE74534 Parallel single-cell bisulfite- and RNA-sequencing link transcriptional and epigenetic heterogeneity [RNA-seq] 96 samples shares heterogeneity, epigenetic
- GSE283255 Distinct Vps34-orchestrated signaling processes dictate the transitional heterogeneity and functional adaptation of effector Treg cells [ATAC-seq2] 14 samples shares heterogeneity, distinct
- GSE283256 Distinct Vps34-orchestrated signaling processes dictate the transitional heterogeneity and functional adaptation of effector Treg cells [ATAC-seq1] 10 samples shares heterogeneity, distinct
- GSE304622 KDM8 is a master regulator for hypoxia-induced metastatic heterogeneity in pancreatic cancer 43 samples shares heterogeneity
- GSE227517 Endometrial Cancer Susceptibility Gene CTCF is Essential for Progesterone Dependent Uterine Maturation 24 samples shares susceptibility
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.