GEO series

Mutant GFAP alters lineage commitment of neural organoids [AxDorganoids_bulk_experiment1]

GSE267510 Homo sapiens (human) RNA-seq (gene expression) 32 samples Submitted 2025/07/13 Platform GPL24676

At a glance

RNA-seq (gene expression) · human · 32 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: 32 samples: 8 conditions, mostly with about 4 replicates eachGroups 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)

Glial fibrillary acidic protein (GFAP) is a type-3 intermediate filament protein mainly expressed in astrocytes in the central nervous system. Mutations in GFAP cause Alexander Disease (AxD), a rare and fatal neurological disorder. How exactly mutant GFAP eventually leads to white and grey matter deterioration in AxD remains unknown. GFAP is also expressed in radial glial cells, which are neural stem cells in the developing brain.

Read the full summary ↓

Here, we used AxD patient-derived induced pluripotent stem cells (iPSCs) to explore the impact of mutant GFAP during neurodifferentiation. Our results show that GFAP is already expressed in iPSCs. Moreover, we have found that mutations in GFAP can severely affect neural organoid development through altering lineage commitment in embryoid bodies. Together, these results support a key role for GFAP as an early modulator of neurodevelopment.

This dataset

Open GSE267510 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 GSE267510_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 PRJNA1111752 and SRA study SRP507754. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

8 conditions, mostly with about 4 replicates each

control, day 3, ×4 AxD, day 3, ×4 control, day 5, ×4 AxD, day 5, ×4 control, day 7, ×4 AxD, day 7, ×4 control, day 9, ×4 AxD, day 9, ×4

Supports a between-group comparison across 32 samples.

How we read this: 8 replicated groups read from 32 sample titles; they account for 32 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

GSM8267497 control, day 3, replicate 1 control, day 3,
GSM8267498 control, day 3, replicate 2 control, day 3,
GSM8267499 control, day 3, replicate 3 control, day 3,
GSM8267500 control, day 3, replicate 4 control, day 3,
GSM8267501 AxD, day 3, replicate 1 AxD, day 3,
GSM8267502 AxD, day 3, replicate 2 AxD, day 3,
GSM8267503 AxD, day 3, replicate 3 AxD, day 3,
GSM8267504 AxD, day 3, replicate 4 AxD, day 3,
GSM8267505 control, day 5, replicate 1 control, day 5,
GSM8267506 control, day 5, replicate 2 control, day 5,
GSM8267507 control, day 5, replicate 3 control, day 5,
GSM8267508 control, day 5, replicate 4 control, day 5,
GSM8267509 AxD, day 5, replicate 1 AxD, day 5,
GSM8267510 AxD, day 5, replicate 2 AxD, day 5,
GSM8267511 AxD, day 5, replicate 3 AxD, day 5,
GSM8267512 AxD, day 5, replicate 4 AxD, day 5,
GSM8267513 control, day 7, replicate 1 control, day 7,
GSM8267514 control, day 7, replicate 2 control, day 7,
GSM8267515 control, day 7, replicate 3 control, day 7,
GSM8267516 control, day 7, replicate 4 control, day 7,
GSM8267517 AxD, day 7, replicate 1 AxD, day 7,
GSM8267518 AxD, day 7, replicate 2 AxD, day 7,
GSM8267519 AxD, day 7, replicate 3 AxD, day 7,
GSM8267520 AxD, day 7, replicate 4 AxD, day 7,
GSM8267521 control, day 9, replicate 1 control, day 9,
GSM8267522 control, day 9, replicate 2 control, day 9,
GSM8267523 control, day 9, replicate 3 control, day 9,
GSM8267524 control, day 9, replicate 4 control, day 9,
GSM8267525 AxD, day 9, replicate 1 AxD, day 9,
GSM8267526 AxD, day 9, replicate 2 AxD, day 9,
GSM8267527 AxD, day 9, replicate 3 AxD, day 9,
GSM8267528 AxD, day 9, replicate 4 AxD, day 9,

Datasets on a similar topic

GSE267990 Mutant GFAP alters lineage commitment of neural organoids [AxDorganoids_bulk_experiment2] 47 samples shares gfap, axdorganoids, commitment, organoids, lineage, mutant, alters
GSE267992 Mutant GFAP alters lineage commitment of neural organoids 79 samples shares gfap, commitment, organoids, lineage, mutant, alters
GSE263193 Cardiac differentiation roadmap for analysis of plasticity and balanced lineage commitment 63 samples shares commitment, lineage
GSE303838 MECP2 Mutations Rewire Human ESC Fate and Bias Cortical Lineage Commitment [RNA-Seq] 48 samples shares commitment, lineage
GSE263325 Cardiac differentiation roadmap for analysis of plasticity and balanced lineage commitment 24 samples shares commitment, lineage
GSE327361 Motif-directed chromatin repression by BCL11B shapes ectopic targeting and lineage commitment [RNA-seq] 16 samples shares commitment, lineage
GSE271214 A Retinoic Acid:YAP1 signaling axis controls atrial lineage commitment [scRNA-seq] 8 samples shares commitment, lineage
GSE303977 MECP2 Mutations Rewire Human ESC Fate and Bias Cortical Lineage Commitment II 8 samples shares commitment, lineage

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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.