mouse-brain
CZI_CellxGene_Mouse_Brain_DataThis repo contains a test dataset for Celldega. The data was obtained from CellxGene by CZI (https://cellxgene.cziscience.com/datasets).
mousebrain_visium_3section # Mouse Brain Visium · 3 complementary sections
Curated, ready-to-load spatial transcriptomics dataset.
## Source
- Paper: [10x Genomics public datasets](https://www.10xgenomics.com/datasets)
- Canonical download: cf.10xgenomics.com/samples/spatial-exp/1.1.0/V1_*
## Scale
| Property | Value |
|---|---|
| Technology | 10x Genomics Visium |
| Species | Mus musculus |
| Tissue | Mouse brain (sagittal anterior, sagittal posterior, coronal) |
|… See the full description on the dataset page: https://huggingface.co/datasets/Shaow/mousebrain_visium_3section.mousebrain_merfish_zhuang # Whole Mouse Brain MERFISH · Zhuang ABCA-4
Curated, ready-to-load spatial transcriptomics dataset.
## Source
- Paper: [Zhang, Jung, Zhuang et al., Nature 2023](https://www.nature.com/articles/s41586-023-06808-9)
- Canonical download: Brain Image Library doi 10.35077/act-bag · counts_mouse4_sagittal subset
## Scale
| Property | Value |
|---|---|
| Technology | MERFISH (1147-gene panel) |
| Species | Mus musculus |
| Tissue | Whole mouse brain… See the full description on the dataset page: https://huggingface.co/datasets/Shaow/mousebrain_merfish_zhuang.mousebrain_snrnaseq_cell2location # Mouse Brain snRNA-seq Reference (cell2location)
Curated, ready-to-load spatial transcriptomics dataset.
## Source
- Paper: [Kleshchevnikov et al., Nat. Biotechnol. 2022 (cell2location)](https://www.nature.com/articles/s41587-021-01139-4)
- Canonical download: cell2location.cog.sanger.ac.uk/tutorial/mouse_brain_snrna/all_cells_20200625.h5ad
## Scale
| Property | Value |
|---|---|
| Technology | snRNA-seq (10x Chromium) |
| Species | Mus musculus |… See the full description on the dataset page: https://huggingface.co/datasets/Shaow/mousebrain_snrnaseq_cell2location.mouse_brain_small_preprocessedmouse_brain_small_raw