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Related Experiment Video

Updated: Mar 12, 2026

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Human neuronal differentiation under Aβ exposure: a single-cell transcriptomic and epigenomic dataset.

Idoia Blanco-Luquin1, Xabier Martínez-de-Morentin2, Amaia Vilas-Zornoza3,4,5

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Scientific Data
|March 11, 2026
PubMed
Summary

This study presents a multimodal single-cell dataset of human neural progenitor cells differentiating over time and after amyloid-beta exposure. The data offers insights into neuronal development and gene regulation for future research.

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Area of Science:

  • Neuroscience
  • Stem Cell Biology
  • Genomics

Background:

  • Human induced pluripotent stem cell-derived neural progenitor cells (NPCs) are crucial for modeling early neuronal differentiation in vitro.
  • Understanding the dynamics of neuronal differentiation is essential for regenerative medicine and disease modeling.

Purpose of the Study:

  • To generate a comprehensive multimodal single-cell dataset of human NPCs during differentiation.
  • To investigate the effects of amyloid-beta peptide on neuronal differentiation dynamics.
  • To provide a valuable resource for studying gene regulation and cell state transitions.

Main Methods:

  • Paired single-cell RNA sequencing (scRNA-seq) and single-cell ATAC sequencing (scATAC-seq) were performed on NPCs at four differentiation time points (days 0, 7, 13, 20).
  • Cells were analyzed under both baseline conditions and following exposure to amyloid-beta (Aβ) 1-42 peptide.
  • Stringent quality control was applied, analyzing 42,575 cells for scRNA-seq and 30,192 cells for scATAC-seq.

Main Results:

  • The dataset provides an in-depth characterization of cell composition, molecular signaling pathways, and functional properties.
  • Gene regulatory network annotations were generated, offering insights into differentiation mechanisms.
  • Transcriptional signatures were compared with a human hippocampal bulk RNA-seq dataset for benchmarking.

Conclusions:

  • This multimodal dataset serves as a reference for human NPC-derived neuronal differentiation.
  • The resource supports diverse analyses including single-cell, multimodal integration, and regulatory network studies.
  • It facilitates research into neuronal development and the impact of neurotoxic peptides like amyloid-beta.