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<p>Human induced pluripotent stem cell–derived neural progenitor cells (NPCs) provide a controlled <i>in-vitro</i> model for studying early stages of neuronal differentiation. Here, we present a multimodal single-cell dataset generated from NPCs differentiated over four time points (days 0, 7, 13 and 20) under baseline conditions and following exposure to amyloid-β (Aβ) 1–42 peptide. The dataset comprises paired single-cell RNA sequencing (scRNA-seq) and single-cell ATAC sequencing (scATAC-seq) profiles, enabling joint characterization of transcriptional and chromatin accessibility dynamics during differentiation. Following stringent quality control, we analyzed 42575 and 30192 high-quality cells for RNA and ATAC respectively, providing an in-depth characterization of cell composition, molecular signaling pathways, functional properties, and gene regulatory network annotations. To facilitate reuse and benchmarking, transcriptional signatures derived from this dataset were additionally compared with a publicly available human hippocampal bulk RNA-seq dataset. This resource provides a reference multimodal dataset for human NPC-derived neuronal differentiation and supports a broad range of single-cell, multimodal integration, and regulatory network analyses.</p>

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

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年3月10日

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  • Idoia Blanco-Luquin,
  • Xabier Martínez-de-Morentin,
  • Amaia Vilas-Zornoza,
  • Daniel Mouzo,
  • Alejandro Lumbreras Lopez,
  • Mónica Macías,
  • Diego Alignani,
  • Alberto Maillo,
  • Ana Cecilia Gonzalez Alvarez,
  • Leena Ali Ibrahim,
  • Vincenzo Lagani,
  • Natalia Ramírez,
  • Jesper Tegner,
  • Felipe Prósper,
  • Maite Mendioroz,
  • David Gomez-Cabrero

摘要

Human induced pluripotent stem cell–derived neural progenitor cells (NPCs) provide a controlled in-vitro model for studying early stages of neuronal differentiation. Here, we present a multimodal single-cell dataset generated from NPCs differentiated over four time points (days 0, 7, 13 and 20) under baseline conditions and following exposure to amyloid-β (Aβ) 1–42 peptide. The dataset comprises paired single-cell RNA sequencing (scRNA-seq) and single-cell ATAC sequencing (scATAC-seq) profiles, enabling joint characterization of transcriptional and chromatin accessibility dynamics during differentiation. Following stringent quality control, we analyzed 42575 and 30192 high-quality cells for RNA and ATAC respectively, providing an in-depth characterization of cell composition, molecular signaling pathways, functional properties, and gene regulatory network annotations. To facilitate reuse and benchmarking, transcriptional signatures derived from this dataset were additionally compared with a publicly available human hippocampal bulk RNA-seq dataset. This resource provides a reference multimodal dataset for human NPC-derived neuronal differentiation and supports a broad range of single-cell, multimodal integration, and regulatory network analyses.