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Spatial Transcriptomics

Unlock the Spatial Context of Biology with Stereo-seq: Where Single-Cell Resolution and Large Field-of-View Fulfill Spatial Precision

Unlock the Spatial Context of Biology with Stereo-seq: Where Single-Cell Resolution and Large Field-of-View Fulfill Spatial Precision

Unlock the Spatial Context of Biology with Stereo-seq: Where Single-Cell Resolution and Large Field-of-View Fulfill Spatial Precision

What is Spatial Transcriptomics?

Spatial transcriptomics is an innovative technology that enables scientists to map gene expression within the structural context of tissues.

This approach not only identifies which genes are active but also reveals their precise locations within the tissue. By providing spatially resolved data, it offers deeper insights into cellular interactions and tissue organization, which are crucial for studying tissue heterogeneity, disease progression, and developmental processes. Unlike conventional transcriptomics, which analyzes gene expression in bulk, spatial transcriptomics delivers a detailed “Google map” of where genes are expressed within a tissue sample.​

This technology has significant applications across multiple fields. In cancer research, it helps scientists examine how tumor cells interact with their surrounding microenvironment, paving the way for disease mechanism research, more targeted therapies, etc. In neuroscience, spatial transcriptomics allows researchers to map neural circuits and understand how gene expression influences brain function. By answering complex questions about tissue function, cellular environments, and disease mechanisms, spatial transcriptomics accelerates advancements in precision medicine and the development of new treatments. It was recognized as the "Method of the Year 2020" by Nature Methods, highlighting its growing importance in biological research.​

Why Stereo-seq

Technology introduction​

STOmics' proprietary Stereo-seq (SpaTial Enhanced Resolution Omics-sequencing) technology provides researchers with a revolutionary sequencing-based tool for spatial biology discovery. Stereo-seq is capable of obtaining whole transcriptome information without pre-designed probes at true single-cell resolution and centimeter-level field-of-view. Stereo-seq has proven performance on multiple tissue samples across different species. This advanced spatial-omics platform is compatible for fresh frozen and formalin-fixed-paraffin-embedded (FFPE) tissue samples. Over 100+ papers have been published on top journals, such as Science, Nature, Cell, during past two years. ​

How Stereo-seq works​

Spatial Transcriptomics Workflow

1

Sample Preparation

Sample Preparation

2

Stain & Imaging

Stain & Imaging

3

mRNA Capture & cDNA Synthesis

mRNA Capture & cDNA Synthesis

5

Data Analysis & Visulaization

Data & Visualisation

Image processing

SteroMap (Manual)

Reads processing & quantification

SAW

Visulaization

SteroMap

Stereo-seq Technology Highlights​

True Single-Cell Resolution

The silicon-based Stereo-seq chip features densely patterned RNA-capturing spots, each labeled with a unique spatial coordinate barcode (Coordinate ID, CID). With a center-to-center distance of just 0.5 µm between adjacent spots, it enables transcriptome studies and analysis at true single-cell resolution. Each cell, approximately 10 µm in diameter, is captured by 400 spots. A standard-sized Stereo-seq chip (1 cm x 1 cm) contains 400 million RNA-capturing spots.​

single-cell-resolution-stereo-seq
single-cell-resolution-stereo-seq

Large Capture Area for Comprehensive Analysis

spatial-transcriptomics-varius-tissues-sizes
spatial-transcriptomics-varius-tissues-sizes

Demonstration of Stereo-seq chip at different sizes

Stereo-Seq accommodates larger tissue samples by offering a centimeter-level field of view

The standard chip size for Stereo-Seq is 1 cm x 1 cm and can be expanded up to 13 cm x 13 cm. Enlarging the capture area allows the measurement of whole mammalian embryos, human organs, or model organisms

Species Agnostic

Stereo-seq technology supports diverse tissue types & species, & works with Fresh & FFPE samples

Stereo-seq Transcriptomics Solution utilizes a capture method for poly-adenylated mRNA capture which supports a wide range of tissue types and species including human, animals, and plants.

complete-genomics-stereo-seq-species

Wide range of Human tissue types

Brain

Thymus

Pancreas

Lymph

Liver

Ovary

Small Intestine

Kidney

Prostate

Endometrium

Muscle

Epileptic Hippocampus

Tonsil

Skin hairfollicle

Brain cancer

Breast cancer

Liver cancer

Pancreatic cancer

Lung cancer

Thyroid cancer

Esophageal cancer

Kidney cancer

Colon cancer

Endometrial carcinoma

Lymphnode metastasis

complete-genomics-stereo-seq-species

Wide range of Mouse tissue types

Head

Whole brain

Eye ball

Tongue

Heart

Skin

Spleen

Large intestine

Small intestine

Lung

Kidney

Liver

Thymus

Bulbus oculi

Ovary

Olfactory bulb

Pancreas

Colon

Cecum

Testis

Spinal cord

Placenta

complete-genomics-stereo-seq-species

More Species tissue types

Arabidopsis

Soy bean

Drosophila

Zebra fish

Salamander

Macaque

STOmics products

Check Our Demo Results

Exploring true spatial single-cell total RNA information with Stereo-seq OMNI by clicking any of the cards below.

Frequently Asked Questions

How does spatial transcriptomics differ from traditional RNA sequencing?

How does spatial transcriptomics differ from traditional RNA sequencing?

How does spatial transcriptomics differ from traditional RNA sequencing?

How does Stereo-seq technology achieve single-cell resolution in spatial transcriptomics?

How does Stereo-seq technology achieve single-cell resolution in spatial transcriptomics?

How does Stereo-seq technology achieve single-cell resolution in spatial transcriptomics?

How many spots are on a 1cm x 1cm Stereo-seq chip?

How many spots are on a 1cm x 1cm Stereo-seq chip?

How many spots are on a 1cm x 1cm Stereo-seq chip?

Do you need a separate instrument for spatial transcriptomics analysis using Stereo-seq?

Do you need a separate instrument for spatial transcriptomics analysis using Stereo-seq?

Do you need a separate instrument for spatial transcriptomics analysis using Stereo-seq?

What is the recommended sequencing depth for Stereo-seq experiments?

What is the recommended sequencing depth for Stereo-seq experiments?

What is the recommended sequencing depth for Stereo-seq experiments?

How is spatial transcriptomics data analyzed?

How is spatial transcriptomics data analyzed?

How is spatial transcriptomics data analyzed?

What are the computational challenges associated with analyzing spatial transcriptomics data?

What are the computational challenges associated with analyzing spatial transcriptomics data?

What are the computational challenges associated with analyzing spatial transcriptomics data?

Does Stereo-seq enable multiplexing?

Does Stereo-seq enable multiplexing?

Does Stereo-seq enable multiplexing?

Can Stereo-seq data be analyzed using single-cell analysis tools like Seurat?

Can Stereo-seq data be analyzed using single-cell analysis tools like Seurat?

Can Stereo-seq data be analyzed using single-cell analysis tools like Seurat?

Highlighted in the Cell Journal

Spatiotemporal Transcriptomic Atlas of Mouse Organogenesis Using DNA Nanoball-patterned Arrays

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*For Research Use Only

Not for use in diagnostic procedures (except as specifically noted).

Copyright © 2024 MGI tech GmbH, Ltd. All Rights Reserved.

Join our newsletter to stay up to date on features and releases.

I have read and understood MGI’s Privacy Policy, and I consent to the collection and processing of my personal data for handling, responding to my contact, receiving your newsletter as well as promotion and marketing activities.

*For Research Use Only

Not for use in diagnostic procedures (except as specifically noted).

Copyright © 2024 MGI tech GmbH, Ltd. All Rights Reserved.