Spatial Transcriptomics Services
Resolve cell states with high-resolution spatial transcriptomics analysis via MERFISH 2.0™ on MERSCOPE Ultra™ with precise, reproducible gene-expression across tissue types and species.
Single-Cell Precision for Every Study
Our scientists deliver end-to-end support for spatial transcriptomics studies. We consult on study goals, design, or refine panels covering up to 1,000 genes, optimize assay conditions for your tissue, and run high-resolution whole-slide imaging on MERSCOPE Ultra.
Our lab services provide end-to-end support for spatial transcriptomics studies. We partner on study goals, select or design panels (up to ~1,000 genes), optimize protocols for your tissue, and run high-resolution whole-slide imaging on MERSCOPE™ Ultra.
You receive reproducible, single-cell data with rigorous QC, plus interactive review in Vizualizer™ for feedback and iteration. Image/data analysis can be included, or ordered as a stand-alone service if you already generate MERFISH 2.0 data in-house.
Spatial Transcriptomics Data Analysis Service
Our data analysis service extends the power of MERFISH 2.0 beyond standard outputs. Whether you generate data on your own MERSCOPE™ Ultra or through Vizgen Lab Services, our Image Data Science team can perform comprehensive spatial transcriptomics analysis on your datasets.
With advanced QC, we deliver:
- Customized cell segmentation
- Clustering
- Annotation
- Cell proximity
- Interaction
- Pathway dynamics
The result is a detailed spatial interpretation of your data, complete with visual reports, figures, and metrics optimized for publication or downstream bioinformatics workflows.
Explore a MERFISH 2.0 Dataset
Preview the kind of transcriptomic output clients review during projects. The MERFISH 2.0 Data Release showcases single-cell, spatial gene-expression data across multiple tissues, including breast and colon cancer and human and mouse brain. It was curated to highlight exceptional sensitivity and broader sample compatibility.
Access is free with a short form, and you can also browse Vizgen’s Data Release Program for additional datasets that mirror our spatial transcriptomics analysis deliverables.
How It Works
Consultation
Work directly with Vizgen scientists to define your study’s objectives, tissue type, and data-quality expectations.
Custom Panel Design or Panel Selection
Select from pre-designed MERFISH panels or design up to 960-gene custom panels using Vizgen’s automated portal for any species.
Sample Shipment
Prepare and send FFPE, fixed-frozen, or fresh-frozen samples following Vizgen’s provided guidelines for integrity and chain-of-custody.
Protocol Development
Our team optimizes sample clearing and staining parameters to ensure consistent signal quality and cross-tissue compatibility.
Spatial Imaging
Samples are imaged on the MERSCOPE Ultra platform for high-resolution, single-cell spatial transcriptomics with subcellular accuracy.
Data Delivery or Further Analysis
Receive QC-verified expression maps and summary files viewable in MERSCOPE Visualizer, or continue with support for downstream spatial transcriptomics analysis.
Why Researchers Choose Vizgen
Unmatched Data Sensitivity
MERFISH 2.0 provides single-cell spatial resolution with up to 8× higher sensitivity and optimized chemistry for clearer, more reliable results.
Flexible Gene Panel Design
Select from pre-validated MERFISH panels or build fully custom panels covering up to 1,000 genes, adaptable to any species or study type.
Proven Performance Across Tissues
Our validated protocols support FFPE, fresh, and fixed-frozen samples, enabling reproducible data across dozens of tissue and disease models.
What Our Customers Are Saying
FAQ
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Can you design panels for any species or only human/mouse?
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Can you integrate external single-cell RNA-seq data with MERFISH?
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Do you offer analysis if we generate data on our own MERSCOPE?