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Dissociated human cerebral organoids on micro-electrode arrays develop neuronal networks

GSE292624 Homo sapiens (human) RNA-seq (gene expression) 13 samples Submitted 2026/02/23 Platform GPL34281
At a glance

RNA-seq (gene expression) · human · 13 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
13 samples: 5 conditions, mostly in duplicateGroups 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
Electrophysiological development and functional plasticity in dissociated human cerebral organoids across multiple cell linesCell reports methods · 2026
Summary (written by the submitters)
Microelectrode arrays (MEAs) are increasingly used to profile the development of synchronised network activity in neural organoids, yet no organoid study has investigated the consistency of electrophysiological development across multiple cell lines. Here, we used dissociated neural organoids derived from six cell lines on MEAs to characterise functional synapse development using multiple parameters across time.
Read the full summary ↓
The dissociated organoids had increasing functional connectivity and network activity over time across all cell lines and plasticity in response to synaptic-like stimulation. Like the organoids they were derived from, dissociated organoid cultures contained a diverse mixture of cell types, including neurons and glia. Variability in activity parameters was associated with differences in cell type composition and regional identity, which in turn were affected by donor cell line and batch effects. Cell type composition and regional identity in dissociated organoid cultures grown on MEAs was investigated using bulk RNA-seq.
Published in
Electrophysiological development and functional plasticity in dissociated human cerebral organoids across multiple cell lines
Pavlinek A, Guerrisi S, O'Driscoll K et al. · Cell reports methods 2026 · PMID 41903542 · doi:10.1016/j.crmeth.2026.101371
This dataset
Open GSE292624 in finder → Find more human RNA-seq datasets →
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 GSE292624_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 PRJNA1240324 and SRA study SRP572260. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41903542) ↗
Study design
5 conditions, mostly in duplicate
Dissociated organoids, 272XX, ×3 Dissociated organoids, 59XY, ×3 Dissociated organoids, KOLF2.1J, ×2 Dissociated organoids, H9, ×2 Dissociated organoids, SCTi003-A, ×2 Dissociated organoids, H1, ×1

Supports a between-group comparison across 12 samples.

How we read this: 5 replicated groups read from 13 sample titles; they account for 12 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.

Samples in this study
Datasets on a similar topic

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