GEO series

Scale Up Manufacturing Approach for Production of Human Induced Pluripotent Stem Cell-Derived Islets Using Vertical Wheel®Bioreactors

GSE266878 Homo sapiens (human) Single-cell RNA-seq 2 samples Submitted 2025/05/30 Platform GPL24676

At a glance

Single-cell RNA-seq · human · 2 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: 2 samples
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: Scale up manufacturing approach for production of human induced pluripotent stem cell-derived islets using Vertical Wheel® bioreactorsNPJ Regenerative medicine · 2025

Summary (written by the submitters)

We utilized the 10x Genomics Chromium Single Cell 3’ RNAseq platform to examine the genomic makeup of human induced pluripotent stem cell-derived islets following their differentiation under full suspension conditions using PBS vertical wheel bioreactors. Our investigation aimed to assess the efficacy of the SC-islet differentiation process in suspension, transitioning from a 0.1L to a scaled-up 0.5L volume.

Read the full summary ↓

Our primary objective was to showcase the effectiveness of a modified protocol for pancreatic endocrine differentiation, with a specific focus on the final stage of maturation during scale-up. To gain a comprehensive understanding of these developmental changes, we integrated our transcriptomic analyses post the final maturation process with transcript data from human donor islets and existing SC-islet datasets.

Published in

Scale up manufacturing approach for production of human induced pluripotent stem cell-derived islets using Vertical Wheel® bioreactors

Dadheech N, Bermúdez de León M, Czarnecka Z et al. · NPJ Regenerative medicine 2025 · PMID 40442082 · doi:10.1038/s41536-025-00409-y

This dataset

Open GSE266878 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 GSE266878_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 PRJNA1108662 and SRA study SRP507037. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40442082) ↗

Samples in this study

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+ 2 more — browse all 2 samples with per-sample file links →

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