GEO series

Chimeric antigen receptor-microglia targeting glioblastoma within cortical organoid

GSE294657 Homo sapiens (human) Single-cell RNA-seq 4 samples Submitted 2026/09/15 Platform GPL24676

At a glance

Single-cell RNA-seq · human · 4 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. 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: GlioblastomaThis series is part of our curated briefing on it.
Samples: 4 samples: 4 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.

Summary (written by the submitters)

Glioblastoma (GBM) remains one of the most aggressive and lethal brain tumors, with conventional treatment approaches yielding only modest survival improvements. Although chimeric antigen receptor (CAR) T cell therapy has revolutionized the treatment of hematologic malignancies, its clinical benefits in GBM have been limited. To address this challenge, we developed a novel therapeutic strategy employing CAR-engineered microglia (MG).

Read the full summary ↓

Utilizing human cortical organoids incorporating microglia (mhCOs), we isolated endogenous MG and genetically modified them to express a CAR targeting EGFRvIII, a predominant de novo mutation frequently observed in GBM. To further characterize the engineered microglia and elucidate their transcriptional landscape, four distinct mhCO-derived samples were analyzed via single-cell RNA sequencing (scRNAseq). This dataset provides comprehensive insights into the cellular heterogeneity, CAR expression profiles, and potential immunomodulatory functions of the modified microglia, thereby underpinning their therapeutic promise in targeting GBM.

This dataset

Open GSE294657 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 GSE294657_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: 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 PRJNA1251043 and SRA study SRP578775. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

4 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 4 sample titles: 4 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

GSM8914388 hCO
GSM8914389 U118-CO
GSM8914390 U118-CO w GFP-MG
GSM8914391 U118-CO w CAR-MG

More Glioblastoma datasets

GSE231555 Splicing and gene expression changes in cell lines treated with splicing switching oligonucleotide targeting TRA2B 46 samples same disease briefing · shares targeting
GSE112648 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 18 samples same disease briefing · shares glioblastoma
GSE131928 single cell RNA-seq analysis of adult and paediatric IDH-wildtype Glioblastomas 2 samples same disease briefing · shares glioblastoma
GSE107560 Ivy Glioblastoma Atlas Project 305 samples same disease briefing · shares glioblastoma
GSE13041 Gene expression analysis of glioblastomas identifies the major molecular basis for the prognostic benefit of younger age 267 samples same disease briefing · shares glioblastoma
GSE10878 Integrative Genome-wide Analysis of Glioblastoma. 60 samples same disease briefing · shares glioblastoma
GSE112650 SOX4/11 Enhances NGN2 Reprogramming Glioblastoma Cells into Neuron Cells by Modulating RhoA and CDC42/RAC1 Pathway Activity 30 samples same disease briefing · shares glioblastoma
GSE112645 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 12 samples same disease briefing · shares glioblastoma

Search all human RNA-seq datasets in GEO →

Share this dataset

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.