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Add spatial_simulators v0.2.0 results
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‎spatial_simulators/config.json‎

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"Spatial",
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"Simulation"
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],
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"status": "development"
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"status": "active"
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}

‎spatial_simulators/v0.2.0/dataset_info.json‎

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[
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{
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"name": "brain",
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"label": "Brain",
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"commit": "missing-sha",
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"summary": "10X Visium spatial RNA-seq from adult mouse brain sections paired to single-nucleus RNA-seq",
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"description": "This datasets were generated matched single nucleus (sn, this submission) and Visium spatial RNA-seq (10X Genomics) profiles of adjacent mouse brain sections that contain multiple regions from the telencephalon and diencephalon.",
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"source_urls": ["https://github.com/BayraktarLab/cell2location"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["homo_sapiens"],
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"authors": [],
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"references": {
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"doi": ["10.1038/s41587-021-01139-4"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 42.6133
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},
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{
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"name": "cortex",
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"label": "Cortex",
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"commit": "missing-sha",
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"summary": "Scripts and source data for image processing, barcode calling, and cell type annotations in a seqFISH+ experiment.",
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"description": "The dataset includes processed image data, cell type annotations with Louvain clusters, gene IDs for transcript locations, and mRNA point locations, with additional data available on Zenodo.",
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"source_urls": ["https://zenodo.org/records/2669683"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["homo_sapiens"],
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"authors": [],
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"references": {
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"doi": ["10.1038/s41586-019-1049-y"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 19.3329
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},
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{
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"name": "pdac",
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"label": "pancreatic ductal adenocarcinomas",
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"commit": "missing-sha",
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"summary": "Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas",
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"description": "We developed a multimodal intersection analysis method combining scRNA-seq with spatial transcriptomics to map and characterize the spatial organization and interactions of distinct cell subpopulations in complex tissues, such as primary pancreatic tumors..",
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"source_urls": ["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE111672"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["homo_sapiens"],
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"authors": [],
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"references": {
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"doi": ["10.1101/2020.12.01.407460"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 17.5534
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},
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{
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"name": "olfactorybulb",
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"label": "Olfactorybulb",
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"commit": "missing-sha",
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"summary": "Single-cell and spatial transcriptomic of mouse olfactory bulb",
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"description": "Single-cell and spatial transcriptomic of mouse olfactory bulb",
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"source_urls": ["http://ww1.spatialtranscriptomicsresearch.org/?usid=24&utid=8672855942"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["mus_musculus"],
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"authors": [],
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"references": {
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"doi": ["10.1126/science.aaf2403"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 2.2329
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},
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{
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"name": "fibrosarcoma",
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"label": "Fibrosarcoma",
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"commit": "missing-sha",
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"summary": "Multi-resolution deconvolution of spatial transcriptomics data reveals continuous patterns of Tumor A1 of Tissue 1",
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"description": "Spatial transcriptomics of Tumor A1 of Tissue 1.",
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"source_urls": ["https://github.com/romain-lopez/DestVI-reproducibility"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["mus_musculus"],
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"authors": [],
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"references": {
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"doi": ["10.1038/s41587-022-01272-8"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 27.1576
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},
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{
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"name": "osteosarcoma",
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"label": "Osteosarcoma",
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"commit": "missing-sha",
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"summary": "Spatial profiling of human osteosarcoma cells.",
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"description": "Spatial transcriptome profiling by MERFISH reveals subcellular RNA compartmentalization and cell cycle-dependent gene expression.",
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"source_urls": ["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE176078"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["homo_sapiens"],
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"authors": [],
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"references": {
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"doi": ["10.1073/pnas.1912459116"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 20.1056
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},
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{
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"name": "gastrulation",
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"label": "Gastrulation",
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"commit": "missing-sha",
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"summary": "single-cell and spatial transcriptomic molecular map of mouse gastrulation",
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"description": "Single-Cell omics Data across Mouse Gastrulation and Highly multiplexed spatially resolved gene expression profiling of Early Organogenesis.",
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"source_urls": ["https://content.cruk.cam.ac.uk/jmlab/SpatialMouseAtlas2020/"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["mus_musculus"],
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"authors": [],
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"references": {
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"doi": ["10.1038/s41587-021-01006-2"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 14.9637
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},
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{
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"name": "prostate",
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"label": "Prostate",
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"commit": "missing-sha",
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"summary": "Spatially resolved gene expression of human protate tissue slices treated with steroid hormones for 8 hours",
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"description": "Spatially resolved gene expression was prepard by dissociated hman prostate tissue to single cells, and collected & prepped for RNA-seq using the Visium Spatial Gene Expression kit.",
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"source_urls": ["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159697"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["homo_sapiens"],
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"authors": [],
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"references": {
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"doi": ["10.1016/j.isci.2021.102640"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 19.6893
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},
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{
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"name": "breast",
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"label": "Breast",
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"commit": "missing-sha",
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"summary": "A spatially resolved atlas of human breast cancers",
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"description": "This study presents a spatially resolved transcriptomics analysis of human breast cancers.",
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"source_urls": ["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE176078"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["homo_sapiens"],
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"authors": [],
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"references": {
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"doi": ["10.1038/s41588-021-00911-1"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 22.6482
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},
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{
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"name": "hindlimbmuscle",
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"label": "Hindlimbmuscle",
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"commit": "missing-sha",
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"summary": "Spatial RNA sequencing of regenerating mouse hindlimb muscle",
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"description": "The spatial transcriptomics datasets regenerates mouse muscle tissue generated with the 10x Genomics Visium platform.",
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"source_urls": ["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE161318"],
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"common_dataset_names": null,
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"modalities": [],
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"organisms": ["mus_musculus"],
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"authors": [],
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"references": {
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"doi": ["10.1101/2020.12.01.407460"],
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"bibtex": []
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},
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"date_created": "11-08-2026",
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"file_size_mb": 19.1576
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}
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]

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