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dataset_info.json
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138 lines (138 loc) · 6.25 KB
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[
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/mouse_hspc_nestorowa2016",
"dataset_name": "Mouse HSPC",
"dataset_summary": "Haematopoeitic stem and progenitor cells from mouse bone marrow",
"data_reference": "nestorowa2016single",
"data_url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81682"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/hypomap",
"dataset_name": "HypoMap",
"dataset_summary": "A unified single cell gene expression atlas of the murine hypothalamus",
"data_reference": "steuernagel2022hypomap",
"data_url": "https://cellxgene.cziscience.com/collections/d86517f0-fa7e-4266-b82e-a521350d6d36"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/zebrafish",
"dataset_name": "Zebrafish embryonic cells",
"dataset_summary": "Single-cell mRNA sequencing of zebrafish embryonic cells.",
"data_reference": "wagner2018single",
"data_url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE112294"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/tnbc_wu2021",
"dataset_name": "Triple-Negative Breast Cancer",
"dataset_summary": "1535 cells from six fresh triple-negative breast cancer tumors.",
"data_reference": "wu2021single",
"data_url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE118389"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/immune_cells",
"dataset_name": "Human immune",
"dataset_summary": "Human immune cells dataset from the scIB benchmarks",
"data_reference": "luecken2022benchmarking",
"data_url": "https://theislab.github.io/scib-reproducibility/dataset_immune_cell_hum.html"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/mouse_blood_olsson_labelled",
"dataset_name": "Mouse myeloid",
"dataset_summary": "Myeloid lineage differentiation from mouse blood",
"data_reference": "olsson2016single",
"data_url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE70245"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/pancreas",
"dataset_name": "Human pancreas",
"dataset_summary": "Human pancreas cells dataset from the scIB benchmarks",
"data_reference": "luecken2022benchmarking",
"data_url": "https://theislab.github.io/scib-reproducibility/dataset_pancreas.html"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/gtex_v9",
"dataset_name": "GTEX v9",
"dataset_summary": "Single-nucleus cross-tissue molecular reference maps to decipher disease gene function",
"data_reference": "eraslan2022singlenucleus",
"data_url": "https://cellxgene.cziscience.com/collections/a3ffde6c-7ad2-498a-903c-d58e732f7470"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/tenx_5k_pbmc",
"dataset_name": "5k PBMCs",
"dataset_summary": "5k peripheral blood mononuclear cells from a healthy donor",
"data_reference": "10x2019pbmc",
"data_url": "https://www.10xgenomics.com/resources/datasets/5-k-peripheral-blood-mononuclear-cells-pbm-cs-from-a-healthy-donor-with-cell-surface-proteins-v-3-chemistry-3-1-standard-3-1-0"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/hcla",
"dataset_name": "Human Lung Cell Atlas",
"dataset_summary": "An integrated cell atlas of the human lung in health and disease (core)",
"data_reference": "sikkema2023integrated",
"data_url": "https://cellxgene.cziscience.com/collections/6f6d381a-7701-4781-935c-db10d30de293"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/dkd",
"dataset_name": "Diabetic Kidney Disease",
"dataset_summary": "Multimodal single cell sequencing implicates chromatin accessibility and genetic background in diabetic kidney disease progression",
"data_reference": "wilson2022multimodal",
"data_url": "https://cellxgene.cziscience.com/collections/b3e2c6e3-9b05-4da9-8f42-da38a664b45b"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/mouse_pancreas_atlas",
"dataset_name": "Mouse Pancreatic Islet Atlas",
"dataset_summary": "Mouse pancreatic islet scRNA-seq atlas across sexes, ages, and stress conditions including diabetes",
"data_reference": "hrovatin2023delineating",
"data_url": "https://cellxgene.cziscience.com/collections/296237e2-393d-4e31-b590-b03f74ac5070"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/tenx_1k_pbmc",
"dataset_name": "1k PBMCs",
"dataset_summary": "1k peripheral blood mononuclear cells from a healthy donor",
"data_reference": "10x2018pbmc",
"data_url": "https://www.10xgenomics.com/resources/datasets/1-k-pbm-cs-from-a-healthy-donor-v-3-chemistry-3-standard-3-0-0"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/tabula_sapiens",
"dataset_name": "Tabula Sapiens",
"dataset_summary": "A multiple-organ, single-cell transcriptomic atlas of humans",
"data_reference": "consortium2022tabula",
"data_url": "https://cellxgene.cziscience.com/collections/e5f58829-1a66-40b5-a624-9046778e74f5"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/cengen",
"dataset_name": "CeNGEN",
"dataset_summary": "Complete Gene Expression Map of an Entire Nervous System",
"data_reference": "hammarlund2018cengen",
"data_url": "https://www.cengen.org"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "openproblems_v1/allen_brain_atlas",
"dataset_name": "Mouse Brain Atlas",
"dataset_summary": "Adult mouse primary visual cortex",
"data_reference": "tasic2016adult",
"data_url": "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE71585"
},
{
"task_id": "dimensionality_reduction",
"dataset_id": "cellxgene_census/immune_cell_atlas",
"dataset_name": "Immune Cell Atlas",
"dataset_summary": "Cross-tissue immune cell analysis reveals tissue-specific features in humans",
"data_reference": "dominguez2022crosstissue",
"data_url": "https://cellxgene.cziscience.com/collections/62ef75e4-cbea-454e-a0ce-998ec40223d3"
}
]