INTRODUCTION STOmics Stereo-seq

Art No | STOMICS

INTRODUCTION STOmics Stereo-seq

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Technical Principles

STOmics proprietary Stereo-seq (SpaTial Enhanced REsolution Omics-sequencing) technology offers researchers a novel tool to explore spatial biology with unprecedented field-of-view, and subcellular resolution, enabling simultaneous transcriptome study and analysis at tissue-, cellular-, subcellular- and molecular level from fresh frozen tissue.

Stereo-seq captures mRNA within the tissue on the chip and restores cellular spatial location through spatial coordination barcoding (Coordinate ID, CID), realizing in situ sequencing of tissues for establishing a strong research foundation for in-depth understanding of the relationship among gene expression, cell morphology and cellular microenvironments.

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DNB patterned chip

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CID sequencing

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Stereo-seq chip

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In situ RNA capture

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Library construction & sequencing

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Spatially resolved transcriptomic profiling

Technical Highlights

Integration of pathology and spatio-temporal omics

The innovative staining approach made it possible to integrate the study of pathology and spatio-temporal analysis on the same tissue section.

Large field of view and high resolution

With up to decimeter-scale STOmics Chip and nanoscale DNB probes, subcellular level details can be collected from any position on an entire tissue section.

Multidimensional analysis

Made it possible to integrate the study of tissue staining sections with whole-genome mRNA transcriptomics and proteomics.

High compatibility

Stereo-seq is compatible with fresh frozen samples, and has reliable performance on cells, organs, and embryo sections of various animal and plant species.

Research Areas

Through massive implementation in life Spatio-temporal atlas, species evolution, disease diagnosis, therapy, and prognosis, Stereo-seq and its future technical variations will thus be highly transformative for multiple research fields. It will enhance the overall understanding of human life and advance the redefinition of diseases.

Perform cell segmentation and deconvolution annotation
Decipher spatial information
Recognize key development points
Locate functional genes
Figure cell-to-cell interaction
Discover new biomarkers among disease

Stereo-sep Large Chip Designs

The one and only spatial transcriptomics solution achieves both centimeter level FOV (now up to 2cm x 3cm) with subcellular resolution for efficient capturing of the whole transcriptome.

STOmics Stereo-seq Transcriptomics for Large Chip Designs (LCD) pioneers the whole transcriptome study for entire tissue sections. Stereo-seq for Large Chip Designs is firstly offered to the market:

1cm x 2cm
2cm x 2cm
2cm x 3cm

Compatible for all species (FF samples), it enables a “tissue-to-data” solution through in situ capture of the whole transcriptome, at nanoscale resolution and centimeter-sized field of view.

Exciting proof of the outstanding performance of Stereo-seq technology.

The newly published paper in Nature titled “Multiscale topology classifies cells in subcellular spatial transcriptomics” proposed “a multiscale approach to automatically classify cell types at subcellular level using both transcriptomic information and spatial context” as described. The mathematical tools, topological automatic cell type identification (TopACT), and multiscale approach using multiparameter persistent homology (MPH) were validated on both targeted and whole-transcriptome spatial platforms which improved cell classification and morphology for human kidney tissue and pinpointing individual sparsely distributed renal mouse immune cells without reliance on image data.

Stereo-seq, the array-based whole-transcriptome spatial technology, was used in this paper to verify the mathematical tools. Stereo-seq offered down to 0.5 μm resolution data. By integrating TopACT with MPH landscapes, scientists showed the spatial arrangement of glomerular immune cells in lupus nephritis, demonstrating the effectiveness of the topological approach in quantifying and elucidating tissue organization.

INTRODUCTION STOmics Stereo-seq – Witec AG