Transcriptomics Solution

Product Catalog Stereo-seq Permeabilization Set User Manual Stereo-seq Transcritpomics Set User Manual

Solution Overview

STOmics Stereo-seq Transcriptomics Set for Chip-on-a-slide enables a “tissue-to-data” solution through in situ capture of the whole transcriptome, at nanoscale resolution and centimeter-sized field of view. Stereo-seq Transcriptomics Solution utilizes DNB patterned array chips loaded with spatially-barcoded probes that capture and prime poly-adenylated mRNA from tissue sections in situ. Each cDNA synthesized from mRNA captured on a particular spot is linked to its spatially-barcoded probe, allowing subsequent gene expression mapping of a tissue section following sequencing and visualization analysis using the StereoMap visualization platform.

Product Highlight

Unbiased in situ capturing of the whole transcriptome with true nanoscale resolution

Proprietary cell segmentation algorithm integrated on Stereo-seq Analysis Workflow (SAW) transforming data to information

Unlimited by species and tissue types, also compatible with both fresh frozen and PFA fixed samples for a more extensible application

Larger capture area with chip sizes up to 1cm by 1cm without compromising the capture efficiency

Publications

Single-cell Stereo-seq Reveals Induced Progenitor Cells Involved in Axolotl Brain Regeneration

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Spatiotemporal transcriptomic atlas of mouse organogenesis using DNA nanoball-patterned arrays

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Single-cell spatial transcriptome reveals cell-type organization in the macaque cortex

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Stereo-seq DEVENLOPMENTAL CELL coverpage

Spatiotemporal mapping of gene expression landscapes and developmental trajectories during zebrafish embryogenesis

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High-resolution 3D spatiotemporal transcriptomic maps of developing Drosophila embryos and larvae

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Demo Data

Adult mouse brain

Section size: ~10.5 mm²
Number of mapped spatial barcodes (CIDs) under tissue: ~15.3 M
Number of genes: 578 (bin 14, 14 × 14 DNB, equivalent to ~1 medium size cell)

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Workflow

Tissue to Data End-to-end Solution

Advance towards a more accurate and in-depth saptial single-cell omics study with Stereo-seq's robust chemistry and efficient bioinformatics tools.

Nuclei-stained Image

Spatially Resolved Gene Expression Profile

Single-cell Clustering Results (via cellbin)

Perform Stereo-seq in your own laboratory
with Stereo-seq Kit Solutions

FAQ

Q Can I use used chips to practice tissue section placement?

A

It can be used for practice.

Q Can samples of different tissue types be analyzed on a same STOmics Gene Expression Chip?

A

No, samples of different tissue types need to be tested for different permeabilization conditions. In addition, different samples should not be processed on the same chip to prevent cross-contamination.

Q Which sequencing platform is applicable to Stereo-seq Transcriptomics Set library?

A

STOmics Gene Expression Set-S1 library can be sequenced on DNBSEQ-G400RS, MGISEQ-2000RS and DNBSEQ-T7RS platforms.

Q Can the library of Stereo-seq Transcriptomics Set be pooled with other libraries for sequencing?

A

No, Stereo-seq Transcriptomics Set library requires different sequencing protocols and sequencing reagents compared to other libraries.