GEO series

Uncovering glioblastoma origin cells: Isolation and characterization from the subventricular zone

GSE301596 Homo sapiens (human) RNA-seq (gene expression) 211 samples Submitted 2026/01/01 Platform GPL24676

At a glance

RNA-seq (gene expression) · human · 211 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)
Topic: GlioblastomaThis series is part of our curated briefing on it.
Samples: 211 samples: 153 distinct titles, 46 of them repeatedGroups 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.

Summary (written by the submitters)

Glioblastoma (GBM), which has a poor prognosis despite aggressive treatments, likely originates from specific cells that acquire somatic mutations within the subventricular zone (SVZ), distant from the primary tumor site. However, the properties of GBM origin cells (OCs) residing in the SVZ remain largely unknown. In this study, we isolated and characterized GBM-OCs from the SVZ using a mouse model.

Read the full summary ↓

Exome analyses of the mouse models revealed significant copy number alterations as GBM-OCs progressed to tumors in the model. RNA analysis of human SVZ samples from GBM patients identified chromosomal alterations (7 gain/10 loss), similar to those observed in early human GBM development. These alterations were predominantly found in neural stem cell-like (NSC-like), astrocyte-like (AC-like), and oligodendrocyte precursor cell-like (OPC-like) populations. This study identifies GBM-OCs in the SVZ of mice and humans, highlighting their distinct features, and suggests that these cells could serve as target cells for future GBM treatments.

This dataset

Open GSE301596 in finder → Find more human RNA-seq datasets → Glioblastoma landscape →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE301596_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1285712 and SRA study SRP598113. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

153 distinct titles, 46 of them repeated

Patient 58, GBM, ×6 Patient 37, GBM, ×4 Patient 48, GBM, ×4 Patient 16, GBM, ×3 Patient 37, Cortex, ×3 Patient 40, GBM, ×3 Patient 56, GBM, ×3 Patient 3, GBM, ×2 +38 more

How we read this: Read from 211 sample titles: 153 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.

Samples in this study

GSM9086036 Patient 2, Tumor-free SVZ, replicate 1
GSM9086037 Patient 2, Cortex, replicate 1
GSM9086038 Patient 2, GBM, replicate 1
GSM9086039 Patient 3, GBM, replicate 1
GSM9086040 Patient 3, GBM, replicate 2
GSM9086041 Patient 4, GBM, replicate 1
GSM9086042 Patient 5, Tumor-free SVZ, replicate 1
GSM9086043 Patient 5, GBM, replicate 1
GSM9086044 Patient 5, GBM, replicate 2
GSM9086045 Patient 6, Tumor-free SVZ, replicate 1
GSM9086046 Patient 6, GBM, replicate 1
GSM9086047 Patient 7, GBM, replicate 1
GSM9086048 Patient 8, GBM, replicate 1
GSM9086049 Patient 9, GBM, replicate 1
GSM9086050 Patient 10, GBM, replicate 1
GSM9086051 Patient 11, GBM, replicate 1
GSM9086052 Patient 1, Tumor-free SVZ, replicate 1
GSM9086053 Patient 1, Cortex, replicate 1
GSM9086054 Patient 1, GBM, replicate 1
GSM9086055 Patient 12, Cortex, replicate 1
GSM9086056 Patient 12, GBM, replicate 1
GSM9086057 Patient 13, Tumor-free SVZ, replicate 1
GSM9086058 Patient 13, GBM, replicate 1
GSM9086059 Patient 14, Tumor-free SVZ, replicate 1
GSM9086060 Patient 14, GBM, replicate 1
GSM9086061 Patient 15, Tumor-free SVZ, replicate 1
GSM9086062 Patient 15, GBM, replicate 1
GSM9086063 Patient 16, Tumor-free SVZ, replicate 1
GSM9086064 Patient 16, GBM, replicate 1
GSM9086065 Patient 16, GBM, replicate 2
GSM9086066 Patient 16, GBM, replicate 3
GSM9086067 Patient 17, GBM, replicate 1
GSM9086068 Patient 18, GBM, replicate 1
GSM9086069 Patient 19, Cortex, replicate 1
GSM9086070 Patient 19, GBM, replicate 1
GSM9086071 Patient 20, Tumor-free SVZ, replicate 1
GSM9086072 Patient 20, Cortex, replicate 1
GSM9086073 Patient 20, GBM, replicate 1
GSM9086074 Patient 21, Tumor-free SVZ, replicate 1
GSM9086075 Patient 21, Cortex, replicate 1

+ 171 more — browse all 211 samples with per-sample file links →

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Search all human RNA-seq datasets in GEO →

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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.