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Charting the transition from in vitro gliogenesis to the in vivo maturation of human glial progenitor cells transplanted into the hypomyelinated mouse brain

GSE283328 Homo sapiens (human) Single-cell RNA-seq 13 samples Submitted 2026/07/17 Platform GPL20301Platform GPL24676Platform GPL25431
At a glance

Single-cell RNA-seq · human · 13 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)
Samples
13 samples: 4 × WA09_invivo_DAPI vs 2 × WA09_invitro_GPC_CD140+ vs 2 × WA09_invitro_GPC_DAPIGroups 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)
Neither rodent models nor in vitro studies of human cells adequately reflect the molecular regulation of human glial progenitor cell (hGPC) expansion, differentiation, and myelination in vivo. To better understand this process, we used scRNA-seq of >60,000 human cells to track the differentiation of hGPCs from pluripotent stem cells (PSCs), both in vitro and in vivo.
Read the full summary ↓
In vitro, the hGPC pool comprised 4 transcriptionally-distinct subpopulations, the heterogeneity of which was associated with histone modifications of stage-dependent genes. After the neonatal transplant of these progenitor cells into immunodeficient and myelin-deficient shiverer mice, they differentiated further; when extracted back from their host brains, scRNA-Seq revealed that the donor cells were comprised solely of hGPCs, astrocytes and oligodendrocytes. A combination of gene co-expression, motif enrichment, cell-trajectory, and cell-cell interaction analyses revealed that the tissue environment potentiated the further, context-dependent differentiation of hGPCs, via ligand-mediated activation of gene regulatory networks. Together, these data chart the process by which manufactured human GPCs differentiate into mature astrocytes and oligodendrocytes in vivo, while establishing the transcriptional and phenotypic stability of these cells following transplantation.
This dataset
Open GSE283328 in finder → Find more 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 GSE283328_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 PRJNA1193119 and SRA study SRP548871. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
4 × WA09_invivo_DAPI vs 2 × WA09_invitro_GPC_CD140+ vs 2 × WA09_invitro_GPC_DAPI

Supports a between-group comparison across 8 samples.

How we read this: 3 replicated groups read from 13 sample titles; they account for 8 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
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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.