Precision Bioinformatics & Data Analysis Service

Generating high-resolution spatial data is only the first hurdle; the real challenge lies in making sense of the massive, highly complex datasets that follow. If your lab is facing a data bottleneck, our Bioinformatics & Data Analysis Service is designed to translate your raw spatial omics files into robust, publication-ready biological narratives.

We specialize in extracting the "where" and "what" from tissue samples, combining state-of-the-art computational pipelines with deep biological intuition to analyze spatial metabolomics, lipidomics, transcriptomics, proteomics, and single-cell data.

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Precision bioinformatics & data analysis for spatial omics

Our services
Multi -omics solutions
Why Choose
FAQs

Comprehensive Omics Capabilities

We provide tailored computational support across the entire spatial and single-cell spectrum.

Omics Modality	Key Analyses Performed	Biological Applications
Spatial Metabolomics	Spectral preprocessing, ion image generation, spatial metabolite annotation (FDR correction), metabolic pathway mapping.	Mapping tumor microenvironment metabolism, drug distribution, biomarker discovery.
Spatial Lipidomics	Lipid class identification, isoform resolution, spatial co-localization analysis.	Investigating neurodegeneration, membrane dynamics, and inflammatory responses.
Spatial Transcriptomics	Spatially variable gene (SVG) detection, cell-type deconvolution, spatial domain clustering.	Defining tissue architecture, mapping gene expression to morphological features.
Spatial Proteomics	Multiplexed image analysis, single-cell segmentation, protein neighborhood analysis.	Immuno-oncology profiling, spatial phenotyping of tissue niches.
Single-Cell Omics	Dimensionality reduction (UMAP/t-SNE), trajectory inference, rare cell-type identification.	Creating reference atlases to anchor and enhance spatial data resolution.

The Integrative Advantage: Multi-Omics Co-Registration

Biology does not operate in silos. Our core differentiator is the ability to perform multi-omics integration.

Transcriptomics + Proteomics: Validate gene expression with protein-level spatial localization.
Metabolomics + Single-Cell: Map specific metabolic microenvironments back to the exact cell subpopulations driving them.
Histology + Molecular Data: Seamlessly overlay molecular signatures onto H&E or IF images to correlate chemistry with classical pathology.

Our End-to-End Analysis Pipeline

Pre-Processing & Quality Control: Rigorous artifact removal, batch-effect correction, and data normalization tailored to your specific platform (e.g., Visium, MALDI, CosMx).
Spatial Feature Extraction: Identifying the specific molecules or genes that drive spatial heterogeneity within your tissue slices.
Microenvironment Mapping: Utilizing advanced algorithms to identify distinct spatial domains, cellular neighborhoods, and cell-cell communication networks (ligand-receptor interactions).
Biological Contextualization: Moving beyond raw statistics to perform pathway enrichment analysis, linking data patterns to biological functions and disease states.
Interactive Data Delivery: Providing high-quality, publication-ready visualizations (spatial heatmaps, violin plots, UMAPs) alongside an interactive digital dashboard so you can explore your data seamlessly.

FAQs

What spatial platforms and file formats do you support?

We are platform-agnostic. For spatial transcriptomics and proteomics, we routinely process data from 10x Genomics (Visium, Xenium), NanoString (GeoMx, CosMx), and Akoya Biosciences. For spatial metabolomics and lipidomics, we handle standard imaging mass spectrometry formats (like imzML and mzML) generated by Bruker, Waters, and Thermo Fisher instruments. If you have a custom or emerging platform, we can build a tailored ingestion pipeline

How do you ensure data security and confidentiality?

We take data integrity and intellectual property seriously. All data transfers occur via secure, end-to-end encrypted portals. We are fully prepared to sign Non-Disclosure Agreements (NDAs) before any data or project details are shared.

Do we need to provide our own single-cell RNA-seq data for spatial deconvolution?

Not necessarily. While paired scRNA-seq data from the same tissue block yields the highest resolution for deconvolution, we can also leverage publicly available reference atlases (such as those from the Human Cell Atlas or specialized disease cohorts) to anchor and annotate your spatial data.

Learn about other Q&A.

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

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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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