This online resource aims to provide researchers, academics, and enthusiasts with key overviews and direct access to spatial transcriptomics data. The center compiles multiple important datasets, fostering collaboration, enhancing data transparency, and advancing scientific progress in the field of spatial transcriptomics.
| Name | Description | Website |
|---|---|---|
| Spatial Transcriptomics Arena(STAr) | The Spatial Transcriptomics Arena(STAr) is an open platform for methodology research. It provides resources including curated datasets from simulation and real studies (Dataset tab), accessible analysis methods (Method tab), and reproducible analysis results (Analysis tab). It also welcomes new datasets, methods, or analysis results contributed by the broad research community. (600+ Simulation Datasets, 193+ Real Datasets, 5 Spatial Patterns, 4 Sparsity Settings.) | STAr |
| STimage-1K4M | The STimage-1K4M dataset contains 1,149 spatial transcriptomics slides, with over 4 million spots paired with gene expression data. It is designed to foster research in spatial transcriptomics by combining high-resolution histopathology images with gene expression data and spatial coordinates for each spot. | STimage-1K4M |
| HEST-1k | HEST-1k comprises 1,229 spatial transcriptomic profiles, each linked to a Whole Slide Image (pixel size > 1.15 µm/px) with associated metadata. It was assembled from 131 public and internal cohorts, covering:26 organs, 2 species (Homo sapiens and Mus musculus), 367 cancer samples across 25 cancer types. Through advanced processing, HEST-1k enabled the identification of 1.5 million expression-morphology pairs and 76 million nuclei. | HEST-1k |
| DeepSpaceDB | A comprehensive spatial transcriptomics database hosting over 1,500 samples across human and mouse tissues. DeepSpaceDB focuses on interactivity and advanced analytical functionality, enabling users to explore spatial transcriptomics data with unprecedented flexibility. DeepSpaceDB allows for interactive selection and comparison of gene expression across regions within a single tissue slice or between slices, such as comparing hippocampal regions of an Alzheimer’s model mouse and a control. It also includes quality indicators, database-wide trends, and advanced visualizations that provide real-time interactivity, such as zoomable plots and hover-based information display. | DeepSpaceDB |