Single Cell Imaging
and Mass Cytometry
Analysis Platform (SCIMAP)

Xenium: High-Performance Spatial Transcriptomics

The Xenium platform by 10x Genomics offers an advanced, end-to-end solution for spatial gene expression profiling at subcellular resolution. This powerful tool allows researchers to map and quantify up to 5,000 genes within their spatial context, providing insights into cellular functions and interactions that were previously unattainable. The platform is compatible with both fresh frozen (FF) and formalin-fixed, paraffin-embedded (FFPE) tissues, making it versatile for various research needs.

Xenium's unique probe chemistry ensures high specificity, enabling precise localization of RNA molecules within tissue sections. The platform also supports future capabilities for multiplexed protein detection, allowing simultaneous RNA and protein analysis on the same tissue section. With its non-destructive workflow, researchers can retain tissue morphology for subsequent staining, such as H&E or immunofluorescence, facilitating direct comparisons between transcriptional data and morphological features. The Xenium Analyzer, a robust and versatile instrument, automates the entire process from sample preparation to data analysis, delivering high-resolution images and detailed gene expression maps that can be visualized and explored using Xenium Explorer or other compatible tools.

Visium HD (Cytassist): High-Definition Spatial Transcriptomics

The Visium HD (Cytassist) platform from 10x Genomics provides high-definition spatial transcriptomics, enabling researchers to perform whole-transcriptome analysis with single-cell scale resolution. This platform uniquely combines histology with spatially resolved gene expression profiling, allowing for the detailed localization and quantification of gene expression within the tissue context.

Visium HD uses a redesigned slide architecture featuring millions of 2x2 µm barcoded squares, ensuring continuous tissue coverage without gaps. This design facilitates the high-resolution mapping of gene expression across entire tissue sections, making it an ideal tool for studies requiring precise spatial information, such as in cancer biology, neuroscience, and developmental biology. The Cytassist instrument further enhances the Visium workflow by enabling the transfer of transcriptomic probes from standard glass slides to Visium slides, thus broadening the range of sample types that can be analyzed. Visium HD's streamlined workflow and advanced imaging capabilities make it an essential platform for researchers looking to explore the intricate spatial organization of tissues with unparalleled clarity.

Helios: High-Dimensional Single-Cell Analysis

Helios is the third-generation mass cytometer (CyTOF) produced by Fluidigm, designed for in-depth phenotypic analysis of single cells using inductively coupled plasma time-of-flight mass spectrometry (ICP-MS). Helios allows for the simultaneous analysis of more than 40 markers on a single cell, enabling researchers to capture a tremendous amount of data from minimal sample sizes. This technology is ideal for generating high-dimensional single-cell datasets, providing unparalleled insight into cellular diversity and function.

Hyperion: Imaging Mass Cytometry

The Hyperion by Fluidigm offers imaging mass cytometry, a complementary technology to flow-based mass cytometry that allows for the spatial analysis of tissue samples stained with metal-conjugated antibodies. Hyperion achieves single-cell resolution by scanning tissue sections with a small-spot-size pulsed laser, vaporizing 1-micron spots with each laser shot, and analyzing them using mass cytometry. This approach allows for the mapping of target proteins throughout the tissue section, preserving spatial localization and enabling the digital reconstruction of tissues. Researchers can interrogate tissues with over 40 parameters simultaneously, providing rich datasets that combine protein expression and spatial localization within an intact tissue sample.

Chromium X: High-Throughput Single-Cell RNA Sequencing

The Chromium X platform by 10x Genomics is a revolutionary tool for single-cell and multiomic analysis, offering unmatched resolution, sensitivity, and throughput. Utilizing advanced GEM-X technology, it enables precise partitioning and barcoding of up to 20,000 cells per channel, allowing comprehensive profiling of transcriptomes, chromatin accessibility, and cell surface proteins in a single experiment. Its multiomic capabilities, combined with optimized workflows and scalable flexibility, make it suitable for a wide range of applications, from oncology and neuroscience to immunology and drug discovery. The platform is tissue- and species-agnostic, ensuring consistent, high-quality results across diverse research needs, while intuitive software tools facilitate in-depth data analysis and visualization. Chromium X empowers researchers to explore cellular complexity at an unprecedented scale, driving breakthroughs in biomedical research.

1. Single-cell spatial immune landscapes of primary and metastatic brain tumours. Nature 2023. DOI: 10.1038/s41586-022-05680-3
2. Single-cell spatial landscapes of the lung tumour immune microenvironmen.. Nature. 2023. DOI: 10.1038/s41586-022-05672-3.
3. A Single-Cell Atlas of Small Airway Disease in Chronic Obstructive Pulmonary Disease: A Cross-Sectional Study.  Am J Respir Crit Care Med. 2023.  DOI: 10.1164/rccm.202303-0534OC
4. Spatially mapping the immune landscape of melanoma using imaging mass cytometry. Sci Immunol. 2022. DOI: 10.1126/sciimmunol.abi5072.
5. Neutrophil oxidative stress mediates obesity-associated vascular dysfunction and metastatic transmigration. Nat Cancer. 2021. DOI: 10.1038/s43018-021-00194-9.

Helios, a CyTOF System
Fluidigm Online Catalogue

Protocols
Maxpar® Cell Surface Staining
Maxpar® Phospho-Protein Stainin
Maxpar® Nuclear Antigen Staining
Maxpar® Cytoplasmic/Secreted Antigen Staining