Malva is a universal search index for single-cell and spatial sequencing technologies that unifies multi-terabyte repositories of nucleotide data into an instantly queryable resource. The system allows researchers to search across hundreds of millions of cells from thousands of experiments with single-cell and spatial resolution.

With Malva, you can instantly analyze any nucleotide pattern across cell types, experiments, and organisms, enabling unprecedented insights into gene expression patterns at a cellular level.

Malva uses advanced indexing technology to store and query cellular transcriptomic data efficiently. The core components include:

• A k-mer based indexing system for ultra-fast sequence search
• Distributed storage architecture for scaling to billions of cells
• Natural language processing to convert plain English queries into gene and sequence searches
• Metadata enrichment to provide biological context to search results

When you submit a query, Malva processes it, identifies matching cell populations, and returns comprehensive results with biological context.

Malva supports three primary query types:

Malva currently indexes over 3,500 datasets from major single-cell and spatial transcriptomics initiatives, including:

• Human Cell Atlas (HCA)
• Public GEO-archived spatial samples
• Tabula Muris
• Linnarsson Adult Human Brain
• Numerous tissue-specific atlases

Our database covers multiple organisms, technologies, and tissue types. You can view the complete list of datasets on the search engine by clicking the "Datasets" dropdown.

If you use Malva in your research, please cite our paper: