Spatial transcriptomics
Stereo-seq (STOmics) data analysis
Whole-transcriptome data at very high spatial resolution, binned and segmented sensibly.
What Stereo-seq (STOmics) measures
Stereo-seq is a sequencing-based method that captures RNA on DNA nanoball arrays with spots spaced roughly half a micron apart, over capture areas that can reach centimetre scale. It provides whole-transcriptome data at very high spatial resolution, which is then binned or segmented into cells for analysis.
Strengths
- Whole-transcriptome coverage at very high resolution
- Large capture areas for whole organs or embryos
- Flexible binning from subcellular to tissue scale
How we can help with Stereo-seq (STOmics) data
Binning and segmentation
Choosing bin sizes and segmenting cells from the stained image.
QC
Filtering low-quality bins and cells and checking capture across the chip.
Clustering and domains
Cell types, spatial domains and spatially variable genes.
Registration
Aligning expression with histology images.
Integration
Combining Stereo-seq with single-cell references and other assays.
Figures
Spatial maps and statistics for publication.
Related technologies
Working with Stereo-seq (STOmics) data?
Tell us about your samples, panel and question. The first consultation is free.