This is a repository of the datasets used in scSpace

DataSet	DataType	Species	Tissue	Technology	DataSource	Reference
human_DLPFC	Spatial transcriptomics	human	human dorsolateral prefrontal cortex	10x Visium	http://spatial.libd.org/spatialLIBD/	Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex
mouse_V1_neocortex	Spatial transcriptomics	mouse	V1 primary visual cortex	STARmap	Dropbox	Three-dimensional intact-tissue sequencing of single-cell transcriptional states
human_breast_cancer	Spatial transcriptomics	human	HER2 breast cancer	ST	Zenodo	Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions
human_SCC_st	Spatial transcriptomics	human	skin squamous cell carcinoma	ST	GSE144240	Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma
human_SCC_sc	scRNA-seq	human	skin squamous cell carcinoma	10x Genomics	GSE144240	Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma
mouse_intestine_sc	scRNA-seq	mouse	the small intestinal villus	LCM	GSE109413	Spatial Reconstruction of Single Enterocytes Uncovers Broad Zonation along the Intestinal Villus Axis
mouse_intestine_st	Spatial transcriptomics	mouse	colon	10x Visium	GSE169749	The spatial transcriptomic landscape of the healing mouse intestine following damage
mouse_liver_sc	scRNA-seq	mouse	liver lobule	MARS-seq	GSE84498	Single-cell spatial reconstruction reveals global division of labour in the mammalian liver
mouse_liver_st	Spatial transcriptomics	mouse	liver	10x Visium	https://www.livercellatlas.org	Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
mouse_neocortex_sc	scRNA-seq	mouse	V1 neocortex	SMART-Seq v4	Allen Brain Map	Shared and distinct transcriptomic cell types across neocortical areas
mouse_kidney_sc	scRNA-seq	mouse	kidney	10x Genomics	GSE129798	Single-Cell Profiling Reveals Sex, Lineage, and Regional Diversity in the Mouse Kidney
mouse_kidney_st_10x	Spatial transcriptomics	mouse	kidney	10x Visium	10x Genomic	10x Visium Spatial Gene Expression of “Adult Mouse Kidney (FFPE)”
mouse_kidney_st_slideseq	Spatial transcriptomics	mouse	kidney	Slide-seq v2	CZ CELLxGENE Discover	High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
mouse_cortex_atac	scATAC-seq	mouse	cortex	ISSAAC-seq	E-MTAB-11264	ISSAAC-seq enables sensitive and flexible multimodal profiling of chromatin accessibility and gene expression in single cells
human_heart_sc	scRNA-seq	human	embryonic heart	10x Genomics	Mendeley Data	A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart
human_heart_st	Spatial transcriptomics	human	embryonic heart	ST	Mendeley Data	A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart
human_brain_sc_mtg	snRNA-seq	human	MTG	SMART-Seq v4	Allen Brain Map	Conserved cell types with divergent features in human versus mouse cortex
human_brain_sc_multiple	snRNA-seq	human	multiple human cortical areas, covering MTG, ACC, V1C, M1C, S1C and A1C	SMART-Seq v4	Allen Brain Map	/
human_melanoma_sc	scRNA-seq	human	melanoma	SMART-Seq2	GSE72056	Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq
human_melanoma_st	Spatial transcriptomics	human	melanoma	ST	SPATIAL research	Spatially Resolved Transcriptomics Enables Dissection of Genetic Heterogeneity in Stage III Cutaneous Malignant Melanoma
human_COVID19_sc	scRNA-seq	human	lung	10x Genomics	Single Cell portal	A molecular single-cell lung atlas of lethal COVID-19
human_COVID19_st	Spatial transcriptomics	human	lung	10x Visium	GSE178361	Human distal lung maps and lineage hierarchies reveal a bipotent progenitor
human_COVID19_dsp	Spatial transcriptomics	human	lung	GeoMx DSP	Zenodo	The spatial landscape of lung pathology during COVID-19 progression