Mutant IDH inhibitors induce lineage differentiation in IDH-mutant Oligodendroglioma I
Single-nucleus RNA-seq · human · 10 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Topic
- Lower-grade gliomaThis series is part of our curated briefing on it.
- Samples
- 10 samples: 10 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
- Mutant IDH inhibitors induce lineage differentiation in IDH-mutant oligodendrogliomaCancer cell · 2024
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 GSE260928_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1084024 and SRA study SRP493476. 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 10 sample titles: 10 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.
- GSM8128152 Patient BWH445, pre-treatment sample, Chromium gene expression
- GSM8128153 Patient BWH445, on-treatment sample, Chromium gene expression
- GSM8128154 Patient BWH5033, pre-treament sample, Chromium gene expression
- GSM8128155 Patient BWH5033, post-treatment sample, Chromium gene expression
- GSM8128156 Patient PARIS, pre-treatment sample, Chromium gene expression
- GSM8128157 Patient PARIS, post-treatment sample, Chromium gene expression
- GSM8128158 Mouse Notch1-WT, DMSO treated, Chromium gene expression
- GSM8128159 Mouse Notch1-WT, IDHi treated, Chromium gene expression
- GSM8128160 Mouse Notch1-KO, DMSO treated, Chromium gene expression
- GSM8128161 Mouse Notch1-KO, IDHi treated, Chromium gene expression
- GSE260997 Mutant IDH inhibitors induce lineage differentiation in IDH-mutant Oligodendroglioma III 2458 samples same disease briefing · shares idh, oligodendroglioma, inhibitors, idh-mutant, lineage, mutant, induce
- GSE89567 Single cell RNA-seq analysis of IDH-mutant astrocytoma 6341 samples same disease briefing · shares idh, idh-mutant, mutant
- GSE326221 Acquired genetic and cell state changes in IDH-mutant glioma progression [snRNA-seq] 75 samples same disease briefing · shares idh, idh-mutant, mutant
- GSE226321 Multimodal integration of transcriptomics, proteomics and radiomics improves prediction of recurrence in patients with IDH-mutant Glioma 59 samples same disease briefing · shares idh, idh-mutant, mutant
- GSE308634 Transcriptional changes mediated by the HDACi panobinostat in IDH-wildtype and IDH-mutant gliomas 54 samples same disease briefing · shares idh, idh-mutant, mutant
- GSE308636 Transcriptional changes mediated by the HDACi belinostat in IDH-mutant glioma cultures with YAP and TAZ overexpression 36 samples same disease briefing · shares idh, idh-mutant, mutant
- GSE252245 Exploiting the therapeutic vulnerability of IDH-mutant gliomas with zotiraciclib 24 samples same disease briefing · shares idh, idh-mutant, mutant
- GSE134120 Combination of epigenetic enzyme inhibitors, GSKJ4 and Belinostat, reveals efficacy in IDH1 mutant gliomas 16 samples same disease briefing · shares idh, inhibitors, mutant
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.