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Visualize and assess phenotypes and spatial distribution across entire slides.

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Our modular and scalable whole slide imaging systems are built to evolve with your research, offering high image quality and precision.

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Explore complex datasets with integrated dimensionality reduction tools to uncover relationships and drive meaningful conclusions.

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Use predefined pipelines and advanced image analysis options to tackle even the most complex research questions.

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TissueFAXS Platform

Discover our modular imaging platform for scanning of diverse sample types

StrataQuest

Explore our image analysis software that turns imaging data into publication-ready results

AppCenter

Access our library of predefined workflows to streamline and accelerate your analysis

"TissueFAXS enables state-of-the-art multiplex analysis of protein expression and tissue localization, making it my preferred tool for cancer research for over a decade."

"For 13 years, TissueFAXS has enabled groundbreaking discoveries in immune cell complexity, transforming our understanding of cancer pathomechanisms."

"TissueFAXS revolutionized histopathology with AI-driven technology, supporting our vision to advance precision oncology in Africa."

"Our TissueFAXS system has been indispensable since 2008, offering high-throughput imaging, precise cell quantification, and robust technical support, loved by all our users."

"StrataQuest is a flexible and invaluable tool for analyzing the immune microenvironment in cancer research, perfectly tailored to our specific needs."

"TissueFAXS and its analysis software deliver publication-quality imaging and robust data, empowering innovative research beyond classical image analysis."

"TissueFAXS and StrataQuest have revolutionized our biocompatibility studies, offering unparalleled precision in imaging, quantification, and multiplex fluorescence microscopy."

Latest News

Customer Publication

11 Mar, 2026

Spatial Multi-Omics Identifies NAD-Driven Niche in Early Gastric Cancer

A new study reveals how an NAD-dependent immunosuppressive niche drives early gastric cancer development. Using spatial multi-omics and TissueFAXS Spectra with StrataQuest, researchers mapped cell interactions and quantified tumor-promoting fibroblast and epithelial populations.

spatial analysis

oncology

omics research

Press Release

18 Feb, 2026

TissueGnostics Expands Its Presence in Australia: Partnership with Klein Scientific

TissueGnostics and Klein Scientific have entered a partnership to bring advanced microscopy solutions to researchers and institutions across Australia. The collaboration expands TissueGnostics’ reach in the Asia-Pacific region and gives Klein Scientific customers access to tissue cytometry and spatial phenotyping tools.

collaboration

Webinar

20 Jan, 2026

Decoding Metastatic Potential in Colorectal Cancer Using Tissue Cytometry

At ASI 2025, Dr. Melanie McCoy and Ms. Tracey Lee-Pullen presented research on metastatic colorectal cancer, using quantitative tissue cytometry and StrataQuest to study whether the tumor microenvironment predicts metastasis.

tumor microenvironment

oncology

biomarker discovery

immunophenotyping

Publications

Read What Our Customers Are Publishing

Explore our online database>>

Checkpoint Molecules Predict Response to Immunotherapy in Cancer

FEATURED PUBLICATION

Checkpoint Molecules Predict Response to Immunotherapy in Cancer

cells

Heij et al. investigated the expression of checkpoint molecules in the tumor microenvironment of intrahepatic cholangio-carcinoma. They found that co-expression patterns of checkpoint molecules such as PD-L1 and TIGIT correlate with metastases and poor prognosis. TissueFAXS and StrataQuest were used to image the mIF-stained samples and assess protein expression.

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Community-developed Checklists Enhance Reproducibility of Microscopy Images

FEATURED PUBLICATION

Community-developed checklists for publishing images and image analyses

Nature Methods

QUAREP-LiMi is an initiative focused on promoting quality assessment and reproducibility for instruments and images in light microscopy. Dr. Rupert Ecker, CEO of TissueGnostics, participated in developing standardized guidelines for best practices in image communication. These checklists offer key recommendations on image formatting and annotation among others.

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AI-Assisted Analysis of ‘Anti-/Pro-Tumor’ Profiles for Pancreatic Adenocarcinoma

FEATURED PUBLICATION

AI-Assisted Analysis of ‘Anti-/Pro-Tumor’ Profiles for Pancreatic Adenocarcinoma

Cancer Biology & Medicine

To predict survival of patients with pancreatic adenocarcinoma, Zhou et al. performed an AI-assisted comprehensive analysis of CD8+ T cells, cancer stem cells (CSCs), and tumor budding (TB). They used StrataQuest image analysis software to automatically detect and quantify tumor-infiltrating CD8+ T cells, CD133+ CSCs, and CK19+ TB.

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Characterization of the Spatial Immune Context of Lung Cancer

FEATURED PUBLICATION

Characterization of the Spatial Immune Context of Lung Cancer

International Journal of Molecular Sciences

In a recent study, Imamura et al. investigated the role of debrin-expressing tumor infiltration lymphocytes (TIL) in lung cancer. The high-end image analysis solution, StrataQuest, was used for the automatic tissue classification and localization of CD3+/debrin+ cellular phenotypes in the tumor cell nest, as well as in the stroma.

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COL8A1 Promotes Tumor in Pancreatic Ductal Adenocarcinoma

FEATURED PUBLICATION

COL8A1 Promotes Tumor in Pancreatic Ductal Adenocarcinoma

Matrix Biology

Yan et al. investigated several collagen subtypes involved in pancreatic ductal adenocarcinoma desmoplasia. Based on this study, COL8A1 was suggested as a new marker for predicting poor chemotherapy responsiveness and survival. The TissueFAXS imaging platform and StrataQuest analysis solution were used to image and segment morphological structures.

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Erk1/2-Dependent HNSCC Cell Susceptibility to Erastin-Induced Ferroptosis

FEATURED PUBLICATION

Erk1/2-Dependent HNSCC Cell Susceptibility to Erastin-Induced Ferroptosis

cells

Savic et al. investigated the Erk 1/2 pathway role in ferroptosis induction by targeting xCT protein during the treatment of HNSCC. They found erastin to be a potent ferroptosis inducer which is strongly dependent on Erk 1/2 kinases. TissueFAXS and HistoQuest were used to image the IHC-stained samples and calculate the percentage of xCT-positive cells.

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Tumor Microenvironment Characterization of Rectal Cancer

FEATURED PUBLICATION

Case Report: Tumor Microenvironment Characterization of Rectal Cancer

Frontiers in Immunology

Song et al. published a case study investigating the genetics and tumor microenvironment of a rectal cancer patient with MSS/PD-L1-negative recurrent hepatopulmonary metastasis. TissueFAXS and StrataQuest were used to image stained tissue samples and to assess tumor infiltrating immune cells using, among others, CD4, CD8, CD163, PD1, and PD-L1 as markers.

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Adverse Effects of Single

FEATURED PUBLICATION

The impact of HIV infection on the frequencies, function, spatial localization and heterogeneity of TFRs within human lymph nodes

BMC Immunology

Mahlobo et al. published a study in BMC Immunology addressing the effect of HIV infections on frequencies, function, spatial localization and heterogeneity of T follicular regulatory cells (TFRs) in human lymph nodes. TFRs within lymph node tissues were quantified using TissueFAXS i PLUS and TissueQuest.

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Temporal changes

FEATURED PUBLICATION

Temporal changes in T cell subsets and expansion of cytotoxic CD4+ T cells in the lungs in severe COVID-19

Clinical Immunology

Kaneko et al. published a study in the Clinical Immunology journal focusing on the quantitative analysis of T-cell subset alterations in thoracic lymph nodes and lung samples of COVID-19 patients. With the help of TissueFAXS and StrataQuest, the authors were first to show the expansion of cytotoxic CD4+ T cells in the lungs of patients with severe COVID-19.

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Spatial Distribution

FEATURED PUBLICATION

Spatial distribution and functional analysis define the action pathway of Tim-3/Tim-3 ligands in tumor development

Molecular Therapy

In a recent publication in the journal Molecular Therapy, Wang et al (Cheeloo Medical College of Shandong University) combine multiplexing and TissueGnostics’ image cytometry solutions for the assessment of the expression level of Tim-3, a well-known immune checkpoint, in tumor infiltrating lymphocytes. This study nominates Tim-3 as a potential target for cancer immunotherapy.

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Multi-Antigen Imaging

FEATURED PUBLICATION

Multi-Antigen Imaging Reveals Inflammatory DC, ADAM17 and Neprilysin as Effectors in Keloid Formation

International Journal of Molecular Sciences

In a recent publication in the MDPI - International Journal of Molecular Sciences, Rath et al (University Hospital Heidelberg) combine multiplexing, TissueGnostics’ image cytometry and in-depth data mining to characterize the immune microenvironment including spatial relationships within keloid lesions. Using this approach, the authors were able to nominate potential therapeutic targets.

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SynNotch-CAR T

FEATURED PUBLICATION

SynNotch-CAR T cells overcome challenges of specificity, heterogeneity, and persistence in treating glioblastoma

Science Translational Medicine

A recent publication from the group of Choe et al. (University of California, UCSF) published in Science Translational research is exploring the therapeutic effectiveness of SynNotch-CAR T cells in a PDX glioblastoma mouse model. T cells in-situ were imaged/assessed by TissueFAXS and quantified via StrataQuest.

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CpG Methylation Influence on Protease Serine 3 Isoforms in Lung Cancer

FEATURED PUBLICATION

CpG Methylation Influence on Protease Serine 3 Isoforms in Lung Cancer

Acta Pharmaceutica Sinica B

Lin et al. investigated the UHRF1/DNMT1–MZF1 axis in the context of CpG methylation of protease serine 3, a protein with several isoforms that show paradoxical effects. To differentiate the isoforms, the researchers employed 7-marker multiplex staining and performed a quantitative analysis using TissueFAXS SPECTRA and StrataQuest.

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Explore the
Tissue Landscape

Whole-slide imaging and analysis solutions tailored to your research

Unlock cellular insights

Advanced Imaging Made Simple

Support You Can Count On

Powerful Data Exploration

Smart Image Analysis Tools

Explore Our Imaging and Analysis Solutions

TissueFAXS Platform

StrataQuest

AppCenter

Latest News

Spatial Multi-Omics Identifies NAD-Driven Niche in Early Gastric Cancer

TissueGnostics Expands Its Presence in Australia: Partnership with Klein Scientific

Decoding Metastatic Potential in Colorectal Cancer Using Tissue Cytometry

Interested in Learning More?

About Us

Quicklinks

Keep in Touch

Explore the Tissue Landscape

Whole-slide imaging and analysis solutions tailored to your research

Unlock cellular insights

Advanced Imaging Made Simple

Support You Can Count On

Powerful Data Exploration

Smart Image Analysis Tools

Explore Our Imaging and Analysis Solutions

TissueFAXS Platform

StrataQuest

AppCenter

Latest News

Spatial Multi-Omics Identifies NAD-Driven Niche in Early Gastric Cancer

TissueGnostics Expands Its Presence in Australia: Partnership with Klein Scientific

Decoding Metastatic Potential in Colorectal Cancer Using Tissue Cytometry

Interested in Learning More?

About Us

Quicklinks

Keep in Touch

Explore the
Tissue Landscape