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STARmap - Mouse Brain 1
Three-dimensional intact-tissue sequencing of single-cell transcriptional states.
reference Wang et al., 2018
Mus musculus Organism
2,764 × 28 Dimensions
1.53 MiB Size
log_cp10k Normalization
26-09-2024 Created
Description
3D architecture of cell types in visual cortex volumes.
Preview
An AnnData object with
n_obs × n_vars = 2,764 × 28 with slots:
var: feature_name
layers: counts
Data structure
| Name | Description | Type | Data type | Size |
|---|---|---|---|---|
| var | ||||
feature_name | A human-readable name for the feature, usually a gene symbol. | vector | object | 28 |
| layers | ||||
counts | Raw counts | sparsematrix | float32 | 2764 × 28 |
| uns | ||||
dataset_description | Long description of the dataset. | atomic | str | 1 |
dataset_id | A unique identifier for the dataset. This is different from the `obs.dataset_id` field, which is the identifier for the dataset from which the cell data is derived. | atomic | str | 1 |
dataset_name | A human-readable name for the dataset. | atomic | str | 1 |
dataset_organism | The organism of the sample in the dataset. | atomic | str | 1 |
dataset_reference | Bibtex reference of the paper in which the dataset was published. | atomic | str | 1 |
dataset_summary | Short description of the dataset. | atomic | str | 1 |
dataset_url | Link to the original source of the dataset. | atomic | str | 1 |
Download & explore
The processed dataset lives on the OpenProblems public S3 bucket, which is world-readable. Download the file directly, or copy its S3 URI to fetch it with your tool of choice.
dataset.h5ad 1.53 MiB
Download
s3://openproblems-data/resources/datasets/zenodo_spatial/starmap/mouse_brain_2d_zstep10_0/dataset.h5ad Used in
References
- Wang, X., Allen, W. E., Wright, M. A., Sylwestrak, E. L., Samusik, N., Vesuna, S., Evans, K., Liu, C., Ramakrishnan, C., Liu, J., Nolan, G. P., Bava, F.-A., & Deisseroth, K. (2018). Three-dimensional intact-tissue sequencing of single-cell transcriptional states. 10.1126/science.aat5691 ↗