Visium Spatial Assays

Whole transcriptome spatial discovery

Chromium Single Cell
Flexible assays that meet your needs

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Overview
Visium HD icon

HD WT Panel Gene Expression

Protein coding gene coverage

  • Recommended assay for differential gene expression in human and mouse
  • Most flexible tissue compatibility
  • Most sequencing-efficient Visium HD assay
Visium HD 3' icon

HD 3’ Gene Expression

Whole transcriptome coverage

  • Recommended assay for expanded discovery applications
  • Most diverse species compatibility
  • De novo discovery, including isoforms, TCRs/BCRs, and more
Products
Chemistry
  • Probe-basedProbe-based
  • 3' poly(A) capture-based (Reverse transcription)3' poly(A) capture-based (Reverse transcription)
Compatible species
  • HumanHuman
  • MouseMouse
  • AgnosticAgnostic
Compatible samples
  • FFPE tissueFFPE tissue
  • Fresh frozen tissueFresh frozen tissue
  • Fixed frozen tissueFixed frozen tissue
  • Fresh frozen tissueFresh frozen tissue
Assay Input
  • Tissues sectioned onto glass slides
  • Tissues sectioned onto glass slides
Slide architecture & resolution
  • Continuous lawn of 2 μm x 2 μm barcoded squares for single cell–scale resolutionContinuous lawn of 2 μm x 2 μm barcoded squares for single cell–scale resolution
  • Continuous lawn of 2 μm x 2 μm barcoded squares for single cell–scale resolutionContinuous lawn of 2 μm x 2 μm barcoded squares for single cell–scale resolution
Capture Area sizes
  • 6.5 x 6.5 mm (2 Capture Areas per slide)
  • 6.5 x 6.5 mm (2 Capture Areas per slide)
Same-section capabilities
  • Gene expressionGene expression
  • Protein (IF)Protein (IF)
  • Morphology (H&E)Morphology (H&E)
  • Gene expressionGene expression
  • Morphology (H&E)Morphology (H&E)

First-generation assays

v2 WT Panel Gene Expression assay icon

v2 WT Panel Gene Expression

Protein coding gene coverage

  • Probe-based chemistry for human and mouse FFPE, fresh frozen, and fixed frozen tissues
  • Multiomic option with immuno-oncology focused protein panel
  • Resolution of 1–10 cells per 55µm barcoded spot
v1 3’ Gene Expression assay icon

v1 3’ Gene Expression

Whole transcriptome coverage

  • 3’ poly(A) capture-based chemistry for fresh frozen tissues from diverse species
  • Resolution of 1–10 cells per 55µm barcoded spot

Resources to get started

Spatial Buyer's Guide

Spatial Buyer's Guide (coming soon)

Explore the unique strengths and applications of the 10x spatial portfolio, plus compare and contrast the Visium and Xenium platforms to find the right fit for your needs.

User Guides

User guides

Find helpful user guides and technical documents to get started with Visium HD spatial assays.

Featured publications

View all publications

Systematic benchmarking of high-throughput subcellular spatial transcriptomics platforms

Demonstrated the Visium HD assay has superior spatial fidelity compared to other commercially available sequencing-based spatial transcriptomics platforms.

bioRxiv, Dec 2024

Ren P et al.

Read on bioRxiv

Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling

Mapped critical immune cell interactions in the colorectal tumor microenvironment.

bioRxiv, Jun 2024

Oliveira MF et al.

Read on bioRxiv

Tissue-resident memory CD8 T cell diversity is spatiotemporally imprinted

Discovered that regionalized signalling drives two distinct T-cell states in the small intestine.

Nature, Jan 2025

Reina-Campos M et al.

Read on PubMed

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