TRIM28-dependent developmental heterogeneity determines cancer susceptibility through distinct epigenetic states [RNA-seq - day 10 earclips]
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 10 × day10eaclip_Trim28 vs 5 × day10eaclip_WTGroups 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
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 GSE263020_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 PRJNA1095462 and SRA study SRP499404. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 2 replicated groups read from 15 sample titles; they account for 15 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.
- GSM8183392 day10eaclip_Trim28_rep1 day10eaclip_Trim28
- GSM8183393 day10eaclip_WT_rep1 day10eaclip_WT
- GSM8183394 day10eaclip_Trim28_rep2 day10eaclip_Trim28
- GSM8183395 day10eaclip_Trim28_rep3 day10eaclip_Trim28
- GSM8183396 day10eaclip_WT_rep2 day10eaclip_WT
- GSM8183397 day10eaclip_Trim28_rep4 day10eaclip_Trim28
- GSM8183398 day10eaclip_Trim28_rep5 day10eaclip_Trim28
- GSM8183399 day10eaclip_WT_rep3 day10eaclip_WT
- GSM8183400 day10eaclip_Trim28_rep6 day10eaclip_Trim28
- GSM8183401 day10eaclip_WT_rep4 day10eaclip_WT
- GSM8183402 day10eaclip_Trim28_rep7 day10eaclip_Trim28
- GSM8183403 day10eaclip_Trim28_rep8 day10eaclip_Trim28
- GSM8183404 day10eaclip_Trim28_rep9 day10eaclip_Trim28
- GSM8183405 day10eaclip_WT_rep5 day10eaclip_WT
- GSM8183406 day10eaclip_Trim28_rep10 day10eaclip_Trim28
- 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, rna-seq
- GSE262713 TRIM28-dependent developmental heterogeneity determines cancer susceptibility through distinct epigenetic states 182 samples shares trim28-dependent, susceptibility, heterogeneity, determines, epigenetic, distinct
- GSE74534 Parallel single-cell bisulfite- and RNA-sequencing link transcriptional and epigenetic heterogeneity [RNA-seq] 96 samples shares heterogeneity, epigenetic, rna-seq
- 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
- GSE313732 Type I IFN Dynamics Orchestrate Protective ICAM1⁺ Neutrophil Heterogeneity as an Early Checkpoint for Survival in Lethal Viral Infection [RNA-Seq] 78 samples shares heterogeneity, rna-seq
- GSE306744 Pre-division TCF1 downregulation determines long-term effector and memory CD8 T cell fates [RNA-Seq] 31 samples shares determines, rna-seq
- GSE270456 PHF6 regulates stress susceptibility in the pituitary intermediate lobe [RNA-seq] 24 samples shares susceptibility, rna-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.