GEO series

Expression of synaptic function genes in iPSC-derived induced human neurons

GSE293298 Homo sapiens (human) Single-cell RNA-seq 2 samples Submitted 2026/02/04 Platform GPL19415

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: Uncovering NMDA receptor-mediated high firing activity in excitatory human neuronsiScience · 2026

Summary (written by the submitters)

To determine expression levels of neuron-associated genes in induced human neurons, cultures of Ngn2-induced neurons grown on mouse glia were dissociated and assayed for nuclear RNA using the 10X Multiome kits. Associated ATAC data were not evaluated in this study. A mixture of 10 iPSC cell lines, 6 from diagnosed participants with alcohol use disorder (AUD) and 4 unaffected controls, were infected with lentiviral vectors expressing doxycycline-inducible Ngn2.

Read the full summary ↓

Following drug selection for successful transduction, cells were plated onto primary mouse glial cells and allowed to mature for approximately 4 weeks. Cells were harvested with Accutase and Papain, then processed using standard 10X Genomics protocols using the Multiome kit. After importing into Seurat and clustering, excitatory neuron cells were selected and deconvolved to identify the source participant by matching SNPs from earlier GWAS studies. Tables of genes x barcode were then aggregated into genes x cell line matrices, which were loaded into DESeq2 for scaling and normalization. For this study, only processed data from 3 unaffected control subjects are reported. Results demonstrate robust expression of a series of synaptic receptor, channel, and associated signaling genes.

Published in

Uncovering NMDA receptor-mediated high firing activity in excitatory human neurons

Gameiro-Ros I, Tengolics AJ, Prytkova I et al. · iScience 2026 · PMID 41858878 · doi:10.1016/j.isci.2026.115061

This dataset

Open GSE293298 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 GSE293298_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 PRJNA1243963 and SRA study SRP574949. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41858878) ↗

Samples in this study

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

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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.