Publications

What was studied:
A longitudinal, multi-omic spatial atlas of gliomas across diagnosis, treatment, and recurrence, analyzing how tumor and immune cell populations evolve within intact tissue over time.

What MIBIscope™ enabled:
High-plex, spatially resolved protein imaging enabled detailed mapping of tumor, immune, and stromal cell interactions, revealing how cellular neighborhoods reorganize during disease progression without signal overlap.

Outcome / impact:
Showed that glioma progression and recurrence are driven by spatial and immune microenvironment remodeling rather than tumor genetics alone, identifying immune-driven patterns linked to patient outcomes and therapeutic resistance.

What was studied:
Spatial multi-omics analysis of non-small cell lung cancer identifying a population of myeloid-instructed CD14⁺ CD4⁺ T cells and their role within the tumor microenvironment.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging enabled spatial identification of immune cell populations and their proximity relationships, supporting detection of myeloid–T cell interactions and localization of distinct T cell phenotypes within the tumor.

Outcome / impact:
Identified a TNF-driven mechanism where myeloid cells induce aberrant T cell phenotypes via trogocytosis, with high infiltration of CD14⁺ CD4⁺ T cells associated with poor patient survival.

What was studied:
A phase 1 clinical trial evaluating VT1021, a therapeutic designed to reprogram the tumor microenvironment in patients with advanced solid tumors.

What MIBIscope™ enabled:
Multiplexed tissue imaging enables spatial characterization of tumor and immune cell interactions, supporting analysis of how therapies remodel the tumor microenvironment.

Outcome / impact:
VT1021 was shown to be safe and well tolerated, with evidence of tumor microenvironment modulation and early signs of clinical activity, along with identification of potential predictive biomarkers.

What was studied:
Spatial multi-omics analysis of host–microbiome interactions in colitis, examining how immune, epithelial, and microbial components reorganize within the tissue microenvironment.

What MIBIscope™ enabled:
Multiplexed ion beam imaging enables simultaneous spatial mapping of host immune cells and microbial populations, supporting analysis of cellular composition and interaction dynamics in tissue.

Outcome / impact:
Revealed coordinated immune remodeling, microbial shifts, and localized inflammatory responses, providing insight into how disruption of tissue organization drives disease.

What was studied:
A clinical study evaluating neoadjuvant CD40 agonist therapy in patients with solid tumors, examining how treatment reshapes the tumor immune microenvironment.

What MIBIscope™ enabled:
In this study, multiplexed spatial imaging enabled detailed characterization of immune cell composition and activation states within tumors, supporting analysis of therapy-induced remodeling of the tumor microenvironment.

Outcome / impact:
CD40 agonism increased antigen presentation, expanded and activated cytotoxic T cells, reduced immunosuppressive populations, and restructured the tumor microenvironment toward a more effective anti-tumor immune response.

What was studied:
Investigation of how interactions between cancer cells and immune cells influence tumor cell states in glioblastoma, particularly transitions toward mesenchymal-like phenotypes associated with disease progression.

What MIBI enabled:
In this study, spatially resolved and single-cell approaches enabled analysis of tumor–immune cell interactions within tissue, supporting identification of how local cellular environments influence tumor cell behavior.

Outcome / impact:
Demonstrated that immune–tumor interactions actively drive phenotypic transitions in cancer cells, linking microenvironmental signaling to tumor aggressiveness and progression.

What was studied:
Spatial analysis of CD8⁺ T cell responses to cancer immunotherapy in human lymph nodes, comparing immune activity in tumor-draining versus metastatic lymph nodes.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging enabled spatial mapping of immune cell populations within lymph node architecture, supporting analysis of T cell localization, activation states, and interactions within defined tissue regions.

Outcome / impact:
Revealed that effective immunotherapy responses are associated with organized, spatially structured T cell activity in lymph nodes, while metastatic involvement disrupts these immune dynamics, linking spatial immune organization to therapeutic response.

What was studied:
Integrated molecular and spatial profiling of ductal carcinoma in situ (DCIS) to understand the biological factors that drive progression to invasive breast cancer.

What MIBI enabled:
In this study, multiplexed imaging enabled spatial characterization of tumor and immune cell populations within pre-invasive lesions, supporting analysis of how cellular composition and organization relate to disease progression.

Outcome / impact:
Identified molecular and microenvironmental features associated with progression risk, linking spatial tumor–immune context to clinical outcomes and enabling improved stratification of patients with DCIS.

What was studied:
Development of spatial epitope barcoding to track clonal tumor cell populations and their behavior within the tumor microenvironment.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging enabled in situ tracking of barcoded tumor cells, supporting spatial analysis of clonal populations, cell states, and their interactions within tissue.

Outcome / impact:
Revealed that tumor clones form spatially organized patches with distinct growth behaviors, demonstrating that clonal expansion and tumor heterogeneity are shaped by local microenvironmental context.

Study Focus:
Characterization of cellular composition, tumor subtypes, and treatment response in pancreatic cancer using integrated single-nucleus and spatial profiling.

What MIBIscope™ enabled:
Spatially resolved mapping of cell types and protein expression within intact tumor tissue, enabling integration of cellular states with tissue context.

Outcome / Impact:
Identified distinct multicellular communities and treatment-associated tumor states, including programs linked to poor prognosis, providing a framework for understanding tumor response and guiding therapeutic strategies.

What was studied:
Spatial organization of immune cells and tumor-associated macrophages within the tumor microenvironment, with a focus on how cellular neighborhoods influence disease progression and immune response.

What MIBIscope™ enabled:
Multiplexed, spatially resolved protein imaging enabled simultaneous visualization of diverse immune and stromal cell populations within intact tissue, allowing precise mapping of cell–cell interactions and microenvironment structure without signal overlap.

Outcome / impact:
Revealed that specific spatial arrangements of immune cells correlate with disease state and immune activity, highlighting the importance of tissue architecture in understanding tumor biology and informing therapeutic strategies.

Study Focus:
Investigation of how the tumor microenvironment evolves during progression from pre-invasive to invasive breast cancer.

What MIBI Enabled:
High-dimensional spatial imaging of protein markers in intact tissue, enabling mapping of epithelial, stromal, and immune cell organization during disease progression.

Outcome / Impact:
Revealed that transition to invasive cancer is driven by coordinated spatial reorganization of multiple cell types, providing a framework for understanding tumor progression and identifying new intervention points.

Study Focus:
Characterization of tumor heterogeneity, plasticity, and immune microenvironment interactions in small cell lung cancer.

What MIBI Enabled:
Integration of spatial proteomic imaging with single-cell transcriptomic data to map tumor subpopulations and their microenvironment in situ.

Outcome / Impact:
Identified a stem-like, pro-metastatic tumor subpopulation associated with immune suppression and poor prognosis, providing insight into mechanisms of disease progression and therapeutic resistance.

Study Focus:
Integrated analysis of cellular composition and spatial organization in human squamous cell carcinoma.

What MIBI Enabled:
Spatially resolved protein imaging combined with single-cell transcriptomics to map tumor, immune, and stromal cell interactions within intact tissue.

Outcome / Impact:
Revealed coordinated cellular ecosystems and spatial organization underlying tumor behavior, providing a framework for understanding tumor–immune interactions and therapeutic targeting.

Study Focus:
Characterization of spatial organization and cellular composition in human breast tumors.

What MIBI Enabled:
High-dimensional imaging of dozens of protein markers within intact tumor tissue, enabling mapping of tumor, immune, and stromal cell interactions.

Outcome / Impact:
Identified distinct spatially organized cellular neighborhoods associated with tumor biology, establishing a framework for spatial analysis of cancer.

What was studied:
Overview of highly multiplexed tissue imaging approaches applied to immunology, highlighting how spatial profiling enables characterization of immune cell composition and function within complex tissue environments.

What MIBIscope™ enabled:
High-plex spatial imaging enables simultaneous measurement of multiple immune markers at single-cell resolution, supporting analysis of immune cell states, localization, and interactions within intact tissue.

Outcome / impact:
Establishes multiplexed imaging as a key approach for understanding immune system organization and function in situ, with applications across disease biology and translational research.

Study Focus:
Characterization of cellular states and microenvironment organization in human brain tissue across normal aging and neurodegenerative disease.

What MIBI Enabled:
Simultaneous imaging of ~30+ protein markers in intact human brain tissue with spatial resolution, enabling in situ mapping of cellular phenotypes and interactions.

Outcome / Impact:
Identified distinct microglial states and spatial patterns associated with neurodegeneration, providing a new framework for understanding brain pathology in human disease.

Study Focus:
Investigation of how viral infection reshapes immune cell behavior and spatial organization within tissue microenvironments.

What MIBIscope™ enabled:
Integrated spatial imaging of protein expression and nucleic acid signals within intact tissue, enabling simultaneous mapping of immune cell states, interactions, and infection status.

Outcome / Impact:
Identified virus-dependent immunosuppressive interactions between B cells and macrophages, revealing how local immune environments are reprogrammed during infection.

Study Focus:
Investigation of immune-mediated tissue damage associated with checkpoint inhibitor therapy in human gastric tissue.

What MIBI Enabled:
Spatially resolved imaging of immune cell populations and cytokine signaling within intact tissue, enabling identification of functional immune states and interactions.

Outcome / Impact:
Identified an IFN-γ–driven inflammatory program involving T cells and macrophages, providing insight into mechanisms of immunotherapy-related toxicity and immune dysregulation.

What was studied:
Review of multi-omics technologies and their application to understanding immune biology and evaluating therapeutic responses, with emphasis on integrating molecular and cellular data across biological systems.

What MIBIscope™ enabled:
High-plex spatial imaging enables integration of protein-level data with tissue context, supporting characterization of immune cell phenotypes and their interactions within complex tissue environments.

Outcome / impact:
Highlights the importance of integrating multi-modal biological data to better understand immune responses and improve drug development and clinical evaluation strategies.

What was studied:
Spatial organization of tumor and immune cells in diffuse large B-cell lymphoma, focusing on how cellular neighborhoods within the tumor microenvironment relate to disease biology.

What MIBIscope™ enabled:
In this study, high-plex spatial imaging enabled identification and quantification of distinct cellular neighborhood clusters, supporting analysis of spatial relationships between tumor and immune cells within the microenvironment.

Outcome / impact:
Identified multiple spatial patterns of immune suppression and escape, linking tumor–immune organization to underlying disease mechanisms and potential clinical outcomes.

What was studied:
Spatial profiling of diffuse large B-cell lymphoma (DLBCL) to characterize how tumor and immune cells are organized within the tumor immune microenvironment.

What MIBIscope™ enabled:
In this study, high-parameter multiplexed imaging enabled single-cell spatial mapping of tumor and immune populations, supporting identification of distinct cellular neighborhoods and their spatial organization within tissue.

Outcome / impact:
Identified structured cellular neighborhoods that define distinct tumor immune microenvironments, demonstrating that spatial organization—not just cell composition—drives functional differences in lymphoma biology.

Study Focus:
Characterization of spatial organization and immune regulation within human tuberculosis granulomas.

What MIBI Enabled:
High-dimensional imaging of ~30+ protein markers in intact tissue, enabling mapping of immune cell types and spatial microenvironments within granulomas.

Outcome / Impact:
Identified distinct, spatially localized immunosuppressive microenvironments, revealing how tissue structure governs immune function and disease progression.

Study Focus:
Characterization of how cellular composition, immune tolerance, and vascular remodeling are coordinated across space and time at the maternal–fetal interface.

What MIBI Enabled:
High-dimensional spatial imaging of ~30+ protein markers across hundreds of thousands of cells, enabling mapping of cellular interactions and structural changes within intact tissue over gestational time.

Outcome / Impact:
Constructed a spatiotemporal atlas of human pregnancy, revealing coordinated immune and structural programs that support tissue remodeling and healthy development.

Study Focus:
Overview of spatial omics platforms and their application in toxicologic pathology for understanding tissue-level responses to drug and chemical exposure.

What MIBIscope™ enabled:
Inclusion as a high-dimensional spatial proteomics approach capable of mapping protein expression and cellular organization within intact tissue alongside other multiplexed imaging technologies.

Outcome / Impact:
Highlights the growing role of spatial omics in preclinical and translational research, while emphasizing the need for standardized workflows and interpretation frameworks across platforms.

What was studied:
Recognition of spatial proteomics as a transformative approach for mapping protein expression within intact tissue architecture.

What MIBI enables:
High-plex, spatially resolved protein detection without spectral overlap, enabling deep profiling at single-cell resolution in preserved tissue.

Outcome / impact:
Established spatial proteomics as a foundational approach for understanding disease biology, identifying biomarkers, and advancing precision medicine.

What was studied:
Review of highly multiplexed tissue imaging technologies and their role in precision oncology, including applications in tumor profiling, biomarker discovery, and clinical translation.

What MIBIscope™ enabled:
High-plex spatial imaging enables simultaneous measurement of dozens of markers at single-cell resolution, supporting analysis of tumor composition, cell–cell interactions, and functional states within intact tissue.

Outcome / impact:
Positions multiplexed tissue imaging as a critical component of precision oncology, with potential to guide drug development, refine patient stratification, and integrate into clinical workflows.

What was studied:
Review of multiplexed imaging technologies for characterizing tumor tissues, focusing on how spatial analysis reveals cellular composition, organization, and interactions within the tumor microenvironment.

What MIBIscope™ enabled:
High-plex spatial imaging enables simultaneous measurement of multiple protein markers while preserving tissue context, supporting analysis of cell localization, cell–cell distances, and cellular neighborhood structures within tumors.

Outcome / impact:
Establishes multiplexed imaging as a critical approach for understanding tumor organization and microenvironmental interactions, informing mechanisms of disease progression and therapeutic strategy development.

What was studied:
Development of a computational framework to analyze spatial relationships between cells in the tumor microenvironment and evaluate their ability to predict clinical outcomes.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging provided high-resolution spatial maps of cell populations, enabling quantitative modeling of distance-dependent cell–cell interactions within tumor tissue.

Outcome / impact:
Demonstrated that spatial interactions between specific cell types can predict disease characteristics and outcomes, highlighting the importance of quantitative spatial analysis in understanding tumor biology.

What was studied:
Review of the complex interactions between tumor cells, the microenvironment, and the host, highlighting how these relationships drive cancer progression and therapeutic response.

What MIBIscope™ enabled:
Spatially resolved, high-plex imaging approaches enable direct interrogation of cellular interactions and tissue organization described in this framework, supporting analysis of tumor–microenvironment dynamics in situ.

Outcome / impact:
Establishes the importance of studying cancer as a system-level, spatially organized process, reinforcing the need for technologies that capture cellular interactions within intact tissue.

What was studied:
Development of a deep learning framework (CellSighter) for automated classification of cell types in highly multiplexed tissue imaging datasets.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging provided high-dimensional spatial data at single-cell resolution, enabling machine learning–based classification of cell phenotypes directly from tissue images.

Outcome / impact:
Demonstrated accurate, scalable cell-type annotation from complex imaging datasets, supporting downstream spatial analysis of tissue organization and cellular interactions in the tumor microenvironment.

What was studied:
Development of ExPRESSO, an expansion microscopy–based framework enabling high-plex protein imaging with improved spatial resolution in tissue samples.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging was applied to expanded tissue samples, enabling high-dimensional protein detection at near–subcellular resolution while preserving tissue architecture.

Outcome / impact:
Demonstrated enhanced spatial resolution and compatibility with archival tissues, enabling detailed visualization of tissue architecture and biomolecular organization beyond conventional imaging limits.

What was studied:
Development of a machine learning framework (MAPS) for automated cell type annotation from high-plex spatial proteomics data.

What MIBIscope™ enabled:
In this study, multiplexed ion beam imaging generated high-dimensional, single-cell protein expression data, enabling accurate classification of cell phenotypes within tissue.

Outcome / impact:
Demonstrated rapid, scalable cell annotation with pathologist-level accuracy, significantly improving the efficiency and reproducibility of spatial proteomics data analysis.

What was studied:
Review of imaging mass cytometry and its application to studying tumor ecosystems, focusing on how spatially resolved, single-cell analysis reveals cellular composition and heterogeneity within tumors.

What MIBIscope™ enabled:
In this context, imaging mass cytometry platforms such as MIBIscope enable simultaneous measurement of >40 markers in tissue while preserving spatial context, supporting analysis of cell phenotype, localization, and interaction networks at single-cell resolution.

Outcome / impact:
Establishes high-dimensional spatial imaging as a powerful approach for deciphering tumor complexity, intratumoral heterogeneity, and microenvironmental interactions across preclinical and clinical research.

Study Focus:
Evaluation of reproducibility and performance of multiplexed ion beam imaging (MIBI) across human tissue samples and experimental runs.

What MIBI Enabled:
High-dimensional protein imaging using metal-tagged antibodies with consistent signal detection across archived tissue specimens.

Outcome / Impact:
Demonstrated reproducible, scalable imaging suitable for large studies and clinical research, establishing MIBI as a reliable platform for multiplexed tissue analysis.

Study Focus:
Overview of multiplexed ion beam imaging (MIBI) technology and its application to understanding complex tissue biology across disease areas.

What MIBI Enabled:
High-dimensional, spatially resolved protein imaging using metal-tagged antibodies, enabling simultaneous analysis of dozens of markers at subcellular resolution.

Outcome / Impact:
Established MIBI as a scalable platform for studying cellular organization, interactions, and disease mechanisms across cancer, immunology, and infectious disease.

Study Focus:
Development of high-definition multiplexed ion beam imaging (HD-MIBI) to resolve biomolecules and drug distribution at subcellular resolution.

What MIBI Enabled:
3D, nanoscale imaging of proteins, nucleic acids, and small molecules within intact cells, enabling direct visualization of subcellular organization and interactions.

Outcome / Impact:
Revealed non-uniform distribution of the chemotherapeutic drug cisplatin within nuclear microenvironments and identified mechanisms of drug resistance through spatial exclusion.

Study Focus:
Evaluation of computational methods for cell phenotyping in multiplex tissue imaging datasets.

What MIBI Enabled:
High-dimensional single-cell data requiring advanced classification approaches to accurately define cell populations.

Outcome / Impact:
Demonstrated that semi-supervised machine learning approaches improve accuracy and scalability of cell phenotyping, enabling more reliable analysis of complex tissue datasets.

Study Focus:
Development of a method to quantify metabolic states of individual immune cells across multiple pathways and functional axes.

What MIBI Enabled:
High-dimensional, antibody-based proteomic profiling of metabolic regulators at single-cell resolution, enabling analysis of cellular metabolism directly in complex biological samples.

Outcome / Impact:
Revealed that metabolic states are tightly linked to immune cell identity and function, enabling new approaches to study immune responses and guide therapeutic strategies.

Study Focus:
Development and validation of multiplexed ion beam imaging (MIBI-TOF) for high-dimensional spatial analysis of tissue biology.

What MIBI Enabled:
Simultaneous imaging of dozens of protein markers at subcellular resolution in intact clinical tissue, enabling detailed mapping of cellular phenotypes and tissue organization.

Outcome / Impact:
Demonstrated the ability to resolve intratumoral heterogeneity and spatial organization of immune and tumor cells, establishing MIBI as a scalable platform for systems-level tissue analysis.

Study Focus:
Evaluation of multiplexed ion beam imaging for quantitative measurement of clinically relevant biomarkers in breast cancer tissue.

What MIBI Enabled:
Precise, spatially resolved quantification of protein expression levels within intact tumor samples.

Outcome / Impact:
Demonstrated accurate and reproducible measurement of HER2 expression, supporting the use of MIBI for quantitative biomarker analysis in clinical and translational settings.