STOmics Stereo-CITE Proteo-Transcriptomics Set - 1x1cm – Witec AG

Stereo-CITE Proteo-Transcriptomics solution for Protein & RNA co-analysis

STOmics Stereo-CITE Proteo-Transcriptomics Set combines Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq) to simultaneously detect the whole transcriptome and high-plex proteins on the same tissue section.

Using DNA Nanoball (DNB) technology, this solution captures the entire transcriptome at nanoscale resolution and centimeter-sized Field of View (FOV). The Stereo-seq Chip T, loaded with spatial coordinate-containing capture probes, captures mRNA molecules and antibody-derived tags (ADTs) in situ.

Bioinformatics tools analyze the proteome and transcriptome, enabling researchers to profile spatial expression maps.

Stereo-CITE facilitates studying tissue heterogeneity and biological significance in complex tissues, enhancing spatial omics studies.

Application Highlights

• Spatial in situ multi-omics
  Unbiased spatial profiling of whole transcriptome and hundreds of protein markers on the same tissue section.
• High Resolution
  Subcellular resolution for both transcriptome and protein analysis.
• High-plex protein detection
  High detection efficiency of 100+ plex proteins with antibody combinations of your choice from inhouse validated vendor.
• Spatial protein profiling via high-throughput sequencing
  No auto-fluorescence interference or antigen instability caused by multiple rounds of detection.

Combined with Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq), STOmics Stereo-CITE Proteo-Transcriptomics Set is intended for simultaneous detection of the whole transcriptome and 100+ plex protein on the same tissue section.

Stereo-CITE facilitates the study of tissue heterogeneity and associated biological significance in complex (disease) tissues, leading to a broader understanding of spatial omics studies.

Characterizing spatial gene expression profile on histology images

A: Human paracancer lymph nodes spatial gene expression profile at Bin20 (~10µm)

B: Human paracancer lymph nodes spatial protein expression profile at Bin20 (~10µm).

C: Pseudo-color image of 4 selected protein expressions.

The figure below shows the comparison of the spatial co-clustering results with the H&E-stained image of adjacent sections. It was found that the multi-omics spatial co-clustering results perfectly recapitulated the tissue structure of the lymph nodes. It was observed that the mantle area was composed of mainly naive B cells, the germinal center was composed of mainly cycling B cells, the capsule was composed of mainly endothelial cells, and the subcapsular sinus was composed of mainly mast cells, T cells, B cells, and platelets, which is highly consistent with prior biological and histological knowledge.

Co-clustering proves to be an effective approach for the integration of multiple omics analyses. Specifically, the method enables a clear separation of the red and yellow clusters, which remain indistinguishable through RNA and protein-only clustering approaches. Stereo-CITE exemplifies the advantages of combining diverse omics data to achieve a more comprehensive understanding of biological systems.

ImageStudio image processing software, SAW (Stereo-seq Analysis Workflow) and StereoMap visualizaiton platform are offered free of charge to users and enables them to discover spatial biology knowledge with multiplexed tissue images.