Data
Dataset records, tissue sources, cell numbers, platforms, publications, and download links.
Maize single-cell resource
scMaize Single-cell atlas and foundation model
A curated maize single-cell resource for atlas visualization, gene expression query, model access, and data download.
scMaizeAtlasIntegrated UMAP
Color by cell type
Cell typeTissueProject
20+Projects
385,675Cells
66Samples
7Tissues
3Platforms
Resources
Database modules
Atlas
Integrated UMAP, tissue distribution, cell type annotation, and marker gene expression.
Model
scMaize model versions, input format, embedding output, applications, and weights.
Apps
Cell type annotation, cell embedding generation, and gene expression prediction.
Download
Expression matrices, metadata, integrated embeddings, model weights, and example files.
Help
Quick start, atlas guide, model guide, citation, FAQ, and contact information.
Data Resources
Integrated maize single-cell and single-nucleus transcriptomic datasets.
20+Projects
385,675Cells
66Samples
7Tissues
3Platforms
Tissue coverage
Dataset summary
SourcePublic datasets
Data typesc/snRNA-seq
OutputMatrix / Metadata / Embedding
| Project | Tissue | Samples | Platform | Publication | Resource |
|---|---|---|---|---|---|
| Loading... | |||||
scMaizeAtlas
Interactive maize single-cell atlas with tissue, cell type, and gene expression layers.
Interactive visualizationIntegrated UMAP
Color: Cell type
Loading atlas data...
scMaize-Exp
Expression-based model for cell embedding and annotation.
Input: expression matrixOutput: cell embeddingDimension: 384Weights: available
scMaize-GO
GO-enhanced model for expression prediction and functional analysis.
Cell type annotationSimilarity searchExpression predictionModel download
Loading model performance...
Online Apps
Web tools for query datasets and scMaize model applications.
Cell type annotation
Predict cell type labels for uploaded expression matrices.
Cell embedding
Generate low-dimensional cell representations.
Expression prediction
Predict masked or missing gene expression values.
Upload expression matrixCSV / h5ad / mtx
Download
Data files, model weights, embeddings, and example datasets.
Loading resources Reading the database file index
Help
Guide, citation, and contact information.
Quick start
Use Data to browse projects, samples, tissues, platforms, publications, and linked source records. Open Atlas for UMAP exploration, Model for pretrained model resources, and Download for metadata, H5AD, model weights, reports, RDS files, and expression matrices.
Data guide
Search by project, sample, tissue, PubMed, or platform. Open a project row to view sample-level metadata, source links, and available files. Dataset filters can be combined for narrower browsing.
Atlas guide
The Atlas page shows a lightweight UMAP preview generated from the integrated scMaizeAtlas. Color points by cell type, major cell type, tissue, project, or variety, and use filters to focus on selected tissues, cell types, or projects.
Model guide
The Model page summarizes scMaize-Exp and scMaize-GO resources. Performance values are synchronized daily from the project GitHub README.
Download guide
Use Download for global resources such as metadata, atlas H5AD, and model weights. For sample-specific files, open the Data detail modal and download raw matrices, reports, or filtered RDS files from each sample.
Citation
Please cite scMaize when using atlas data, embeddings, model weights, or derived results. Until a formal citation is listed, link to the project repository: yjthu/scMaize.
Contact us
For data, model, or website questions, use the protected email link below or open the project repository.