Oncohistone H3.3K27M-driven CREB5/ID1 Axis Mediates the Malignant Cell States of Diffuse Intrinsic Pontine Glioma (DIPG) [RNA-seq]
RNA-seq (gene expression) · human · 10 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
- Homo sapiens (human)
- Samples
- 10 samples: 3 × ABBV_RNAseq vs 3 × DMSO_RNAseq vs 2 × WT_RNAseq vs 2 × CREB5KD_RNAseqGroups 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
- An oncohistone-driven H3.3K27M/CREB5/ID1 axis maintains the stemness and malignancy of diffuse intrinsic pontine gliomaNature communications · 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 GSE250466_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 PRJNA1054114 and SRA study SRP478777. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 replicated groups read from 10 sample titles; they account for 10 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.
- GSM7979502 WT_RNAseq_rep1 WT_RNAseq
- GSM7979503 WT_RNAseq_rep2 WT_RNAseq
- GSM7979504 CREB5KD_RNAseq_rep1 CREB5KD_RNAseq
- GSM7979505 CREB5KD_RNAseq_rep2 CREB5KD_RNAseq
- GSM8530759 ABBV_RNAseq_rep1 ABBV_RNAseq
- GSM8530760 ABBV_RNAseq_rep2 ABBV_RNAseq
- GSM8530761 ABBV_RNAseq_rep3 ABBV_RNAseq
- GSM8530762 DMSO_RNAseq_rep1 DMSO_RNAseq
- GSM8530763 DMSO_RNAseq_rep2 DMSO_RNAseq
- GSM8530764 DMSO_RNAseq_rep3 DMSO_RNAseq
- GSE250464 Oncohistone H3.3K27M-driven CREB5/ID1 Axis Mediates the Malignant Cell States of Diffuse Intrinsic Pontine Glioma (DIPG) [CUT&Tag] 26 samples shares creb5, dipg, id1, 3k27m-driven, oncohistone, malignant, intrinsic, mediates
- GSE250461 Oncohistone H3.3K27M-driven CREB5/ID1 Axis Mediates the Malignant Cell States of Diffuse Intrinsic Pontine Glioma (DIPG) [ATAC-seq] 8 samples shares creb5, dipg, id1, 3k27m-driven, oncohistone, malignant, intrinsic, mediates
- GSE271301 Multidimensional OMICs reveal ARID1A orchestrated control of DNA damage, splicing, and cell cycle in normal and malignant urothelial cells [RNA-seq] 28 samples shares id1, malignant
- GSE215220 RNA-Seq of VUMC-DIPG10 and HSJD-DIPG007 human diffuse intrinsic pontine glioma cells treated with a copper chelator 12 samples shares dipg, intrinsic
- GSE271687 Multidimensional OMICs reveal ARID1A orchestrated control of DNA damage, splicing, and cell cycle in normal and malignant urothelial cells 38 samples shares id1, malignant
- GSE271587 Multidimensional OMICs reveal ARID1A orchestrated control of DNA damage, splicing, and cell cycle in normal and malignant urothelial cells [ATAC-seq] 10 samples shares id1, malignant
- GSE254647 RNA expression differences in innate immune response to COVID19 with advancing age. 36 samples shares id1
- GSE230036 ARID1A Mutations Promote Immune Evasion of Follicular Lymphoma Through Reduced FAS-Mediated Apoptosis by Hindering RUNX3-ETS1 Cooperativity. 30 samples shares id1
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.