Journal
SCIENCE
Volume 363, Issue 6434, Pages 1463-+Publisher
AMER ASSOC ADVANCEMENT SCIENCE
DOI: 10.1126/science.aaw1219
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Funding
- NIH New Innovator Award [DP2 AG058488-01]
- NIH Early Independence Award [1DP5OD024583]
- Schmidt Fellows Program at the Broad Institute
- Stanley Center for Psychiatric Research
- Hertz Graduate Fellowship
- National Science Foundation Graduate Research Fellowship Program [1122374]
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Spatial positions of cells in tissues strongly influence function, yet a high-throughput, genome-wide readout of gene expression with cellular resolution is lacking. We developed Slide-seq, a method for transferring RNA from tissue sections onto a surface covered in DNA-barcoded beads with known positions, allowing the locations of the RNA to be inferred by sequencing. Using Slide-seq, we localized cell types identified by single-cell RNA sequencing datasets within the cerebellum and hippocampus, characterized spatial gene expression patterns in the Purkinje layer of mouse cerebellum, and defined the temporal evolution of cell type-specific responses in a mouse model of traumatic brain injury. These studies highlight how Slide-seq provides a scalable method for obtaining spatially resolved gene expression data at resolutions comparable to the sizes of individual cells.
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