Spatial transcriptomics datasets
ssREAD covers 381 spatial transcriptomics samples from 18 studies.
| ST001 | human | Dorsolateral prefrontal cortex | Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex | https://github.com/LieberInstitute/HumanPilot | 12 |
| ST002 | human, mouse | Whole brain (mouse), SFG (human) | Spatial Transcriptomics and In Situ Sequencing to Study Alzheimer's Disease | GSE152506 | 20 |
| ST003 | mouse | Hippocampus, olfactory bulb | Spatial Transcriptomics Reveals Genes Associated with Dysregulated Mitochondrial Functions and Stress Signaling in Alzheimer Disease | 10.17632/6s959w2zyr.1 | 48 |
| ST004 | mouse, human | Main olfactory bulb | High-definition spatial transcriptomics for in situ tissue profiling | GSE130682 | 3 |
| ST005 | mouse | Whole brain, hippocampus | Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution | SCP354 | 106 |
| ST006 | mouse | Whole brain, hippocampus | Highly sensitive spatial transcriptomics at near-cellular resolution with Slide-seqV2 | SCP815 | 11 |
| ST007 | mouse | Whole brain | Molecular atlas of the adult mouse brain | GSE147747 | 75 |
| ST008 | mouse | Whole brain | Neuroinflammatory astrocyte subtypes in the mouse brain | GSE165098 | 6 |
| ST009 | mouse | Whole brain, hippocampus | Clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics | See paper | 8 |
| ST010 | mouse | Whole brain | A spatially resolved brain region- and cell type-specific isoform atlas of the postnatal mouse brain | GSE158450 | 11 |
| ST011 | human | Whole brain | Spatially resolved transcriptomics reveals genes associated with the vulnerability of middle temporal gyrus in Alzheimers disease | GSE220442 | 6 |
| ST012 | mouse | Hippocampus | Microglial INPP5D limits plaque formation and glial reactivity in the PSAPP mouse model of Alzheimers disease | GSE203424 | 12 |
| ST013 | mouse | Whole brain | APOE modulates microglial immunometabolism in response to age, amyloid pathology, and inflammatory challenge | GSE212323 | 6 |
| ST014 | mouse | Whole brain | Moxibustion improves hypothalamus Aqp4 polarization in APP/PS1 mice: Evidence from spatial transcriptomics | GSE222981 | 3 |
| ST015 | mouse | Whole brain | Multi-transcriptomics reveals brain cellular responses to peripheral infection in Alzheimers disease model mice | GSE218360 | 8 |
| ST016 | human | Middle Temporal Gyrus | Integrated multimodal cell atlas of Alzheimers disease: SEA-AD MERFISH | SEA-AD MERFISH | 24 |
| ST017 | mouse | Hippocampus, cerebellum | Integrative in situ mapping of single-cell transcriptional states and tissue histopathology in a mouse model of Alzheimers disease | SCP1375 | 12 |
| ST018 | mouse | Cerebellum, hypothalamus | Cell type-specific inference of differential expression in spatial transcriptomics | SCP1663 | 32 |