Data download request for the "Developing Mouse Brain" scRNA-seq reference (van Velthoven et al., Nature 2025)

Technical
1

Dear Allen Institute Team,

I am analyzing scRNA-seq data from the E15.5 mouse telencephalon and looking for the corresponding reference dataset for label transfer.

I am referring to the new publication:
“Transcriptomic and spatial organization of telencephalic GABAergic neurons” (van Velthoven et al., Nature 2025).

I am particularly interested in the 4-level taxonomy (Class / Subclass / Supertype / Cluster) for embryonic GABAergic lineages (e.g., MGE/LGE Immature, STR D1/D2) as described in this paper.

Could you please provide a direct link (e.g., to NeMO Archive) to download the annotated single-cell expression matrix (.h5ad) that corresponds to this specific developmental study?

I have found the adult (P56) datasets, but I am specifically looking for the embryonic/developing dataset to match my E15.5 samples.

Thank you very much!

John Muin

2

Hi John,

this is the NeMO link to the processed files. It contains both the P56 as well as the developmental data.

3

Thank you very much.