Spatial Transcriptomics Service

Spatial transcriptomics is revolutionizing biological research by bridging the gap between molecular biology and tissue morphology. While traditional RNA sequencing requires tissue dissociation—losing critical spatial context—spatial transcriptomics allows you to map where specific gene expression occurs directly within the tissue microenvironment.

Our comprehensive Spatial Transcriptomics Service provides an end-to-end solution for unlocking the spatial architecture of your samples. Whether you are investigating the tumor microenvironment, mapping the brain, or studying developmental biology, we deliver high-resolution, multi-dimensional data to drive your discoveries forward.

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overview of Digital & Molecular Pathology Service

Our services
Workflow
Platform
Applications
Why Choose
FAQs

Our Services

To help you find the exact solution for your research goals, our capabilities are grouped by sample type, profiling scope, and analytical design:

By Sample Type

Whether you have pristine fresh samples or archived clinical blocks, we have optimized workflows for your specific tissue type:

Fresh Frozen Tissue Spatial Transcriptomics Service: Optimized protocols to capture high-quality, full-length RNA transcripts with intact spatial resolution from fresh frozen samples.
FFPE Spatial Transcriptomics Service: Specialized probe-based assays designed to overcome RNA degradation, enabling robust spatial profiling of archived Formalin-Fixed Paraffin-Embedded (FFPE) blocks.

By Resolution & Technology

Spatial Whole-Transcriptome Analysis Service: Unbiased, genome-wide discovery mapping thousands of genes simultaneously across your tissue section.
Targeted Spatial Gene Expression Service: Custom or pre-designed panels focusing on specific pathways or gene sets for deeper sequencing and cost-effective screening.

By Study Design & Advanced Analysis

Disease vs Normal Comparative Spatial Transcriptomics Service: Deep comparative profiling to identify spatial drivers of pathology, ideal for biomarker discovery and target identification.
Spatial Differential Expression Analysis Service: Identifying key spatial biomarkers by comparing gene expression across different morphological zones or tissue regions.
Time-Series Spatial Transcriptomics Service: Tracking spatial gene expression changes over time to study developmental stages or disease progression.

Workflow

Our end-to-end workflow is designed to ensure the highest data quality and is fully managed by our expert scientists.

Spatial Transcriptomics Service workflow

Platform

Our facility is equipped with state-of-the-art technologies to ensure maximum resolution and sensitivity.

10x Genomics Visium: The gold standard for spatial whole-transcriptome analysis, offering unbiased gene expression mapping.
10x Genomics Visium HD: The next generation of Visium, providing single-cell scale resolution (2x2 µm bins) to uncover intricate cellular neighborhoods without the need for deconvolution.
Illumina NextSeq: High-throughput next-generation sequencing platforms ensuring accurate, deep, and cost-effective read outputs.

Spatial Transcriptomics Service platform

Applications

Oncology: Map the tumor microenvironment, analyze tumor-infiltrating lymphocytes, and study spatial heterogeneity.
Neuroscience: Understand the complex cellular architecture of the brain, spinal cord, and neurodegenerative disease pathology.
Developmental Biology: Track spatial and temporal gene expression changes during embryogenesis or tissue regeneration.
Immunology: Investigate immune cell trafficking, localized inflammatory responses, and host-pathogen interactions within intact tissues.
Drug Discovery & Biomarker Identification: Identify novel therapeutic targets and assess spatial drug efficacy and toxicity.

Why Choose Us?

End-to-End Support: From project design to advanced bioinformatics, we handle the entire process.
Sample Versatility: Proven expertise in handling challenging samples, including difficult FFPE blocks and diverse tissue types.
Cutting-Edge Technology: Early adopters of the latest platforms, including Visium HD, to give you a competitive edge.
Advanced Bioinformatics: We don't just hand you raw data; we provide publication-ready figures, interactive data viewers, and complex differential/comparative analyses.
Rigorous Quality Control: Strict QC checkpoints at every stage to ensure maximum data reliability and reproducibility.

FAQs

What is the difference between Visium and Visium HD?

Standard 10x Visium uses 55 µm spots that capture multiple cells per spot, requiring computational deconvolution to estimate cell types. Visium HD utilizes continuous 2x2 µm squares, allowing for true single-cell scale resolution without the need for predictive deconvolution.

What kind of data will I receive?

You will receive raw sequencing data (FASTQ files), spatial mapping files, a comprehensive project report, and user-friendly visualization files that can be opened in tools like 10x Genomics Loupe Browser. We also provide custom bioinformatics outputs depending on your chosen sub-services.

How do I prepare my samples for shipping?

We provide detailed, step-by-step sample preparation and shipping guidelines upon project initiation. Generally, fresh frozen samples require dry ice, while FFPE blocks can be shipped at room temperature.

Learn about other Q&A.

* For Research Use Only. Not for use in diagnostic procedures.

Our customer service representatives are available 24 hours a day, 7 days a week. Inquiry

From Our Clients

"I recently used their proteomics service for a project analyzing protein interactions in yeast models. The team was very responsive and helped clarify the methodology they employed, which made me feel confident in the results. The data quality was solid, with clear identification of several key proteins involved in our study. Their thorough analysis enabled me to pinpoint specific interactions that I hadn't considered before, which significantly improved the direction of my research. I appreciate their professionalism and support throughout the process."

Sarah Thompson, University of California, Berkeley

"Our lab collaborated with them on a project studying cancer biomarkers. The proteomics analysis provided was detailed and focused, specifically highlighting the differential expression of proteins between healthy and tumor samples. Their clear explanations of the data helped my team understand the biological implications. I also appreciated their willingness to revise the reports based on our feedback, ensuring that we had everything we needed for our publication. This collaborative spirit was invaluable."

Emily Rodriguez, Stanford University

"Our lab worked with them on a project studying the effects of diet on gut microbiota using proteomics. They used a label-free quantification method to analyze proteins in fecal samples before and after dietary intervention. The results showed significant changes in protein expression linked to microbial activity. This was pivotal for our hypothesis about diet-microbiota interactions. The clarity of their data presentation made it easy for our team to integrate these findings into our ongoing research."

Dr. Lisa Wong, University of Toronto

"My experience with Creative Proteomics during the mass spectrometry analysis was excellent. We sent in human saliva and mouse brain tissue samples, which they expertly analyzed using both LC-MS and GC-MS techniques. The results were invaluable, revealing key metabolites in the saliva and identifying biomarkers linked to brain function in the brain tissue."

Dr. Emily Carter, Senior Research Scientist

"The overall service from Creative Proteomics was outstanding. They made the entire process seamless and efficient, allowing us to focus on our research. We worked with leaf and root samples from various Arabidopsis genotypes for targeted metabolomics analysis. Their thorough profiling of primary and secondary metabolites gave us important insights into how the plants respond metabolically to environmental stress."

Dr. Laura Henderson, Plant Physiologist

"We had a pleasant collaboration with Creative Proteomics on mass spectrometry analysis of lipids. They conducted a detailed analysis of lipid species, providing us with important insights into lipid metabolism and its relationship with metabolic syndrome disease states."

Dr. Sarah Mitchell, Research Scientist

Online Inquiry

Please submit a detailed description of your project. We will provide you with a customized project plan to meet your research requests. You can also send emails directly to for inquiries.

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