fabricioslv/omnimind-brain-organoids-four-protocols-baseline

OmniMind — Brain organoids four protocols (Naas et al. 2024)

Human brain organoid single-cell RNA-seq across four differentiation protocols.

Source

• —Zenodo: https://zenodo.org/records/15873911
• —GitHub: https://github.com/jn-goe/brainorganoidsfour_protocols
• —Paper: Naas et al. 2024, bioRxiv, DOI: 10.1101/2024.11.15.623576

Files

• —brain_organoids_combined_cell_metadata.parquet — 69,794 cells, 24 metadata columns.
• —brain_organoids_combined_cluster_summary.parquet — cell counts by protocol × annotation.
• —brain_organoids_combined_pca_embedding.parquet — 51-dimensional PCA embedding.
• —brain_organoids_combined_umap_embedding.parquet — 3-dimensional UMAP embedding.
• —brain_organoids_combined_summary.json — schema and counts.

Protocols

• —dorsal
• —midbrain
• —striatum
• —ventral

Use

Baseline of human in vitro neural development for comparison with in vivo Linnarsson data.