Life Science MIKAIA University Spatial Biology

Xenium Analysis with the MIKAIA Cell x Gene App

The MIKAIA® Cell x Gene App can be used to analyze FISH (or similar, e.g., RNAscope), CISH, or spatial transcriptomics scans, including Xenium by 10x Genomics. For Xenium data in particular, this app is the right choice, supporting three types of...

Volker Bruns

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Digital Pathology Life Science MIKAIA University Spatial Biology

MIKAIA’s Slide Alignment: An Overview

With the MIKAIA® 3 release (April 2026), MIKAIA® received a new multi-omics slide alignment module, “MIKAIA® Slide Align“. Based on a 3-phase registration process, the last one being a non-rigid deformation for highest alignment...

Volker Bruns

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Life Science MIKAIA University Spatial Biology

Manual Spatial Proteomics: Fusing Cycles into OME-TIF was Never Easier

Spatial Proteomics was named the Nature Method of the Year 2024. One predominant method is Cyclic Immunofluorescence (CycIF). Here, a tissue sample is stained and scanned during a first cycle. Next, the stain is bleached away, and the sample is...

Volker Bruns

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Category - Spatial Biology

Browse through our Spatial Biology article collection around spatial proteomics and spatial transcriptomics, with a focus on data science.

Life Science Spatial Biology

Programming-free Single Cell Analysis of CODEX TMA with MIKAIA

CODEX, now called PhenoCycler, by Akoya Biosciences, along with other sequential immunofluorescence technologies (e.g., Lunaphore (Comet), Miltenyi Biotech (MACSima), Leica Microsystems (Cell DIVE), or other vendors)...

Volker Bruns

December 18, 2024

Digital Pathology MIKAIA University Spatial Biology

MIKAIA University

MIKAIA® University is the central MIKAIA® learning portal.
You will find various app notes and video tutorials that outline typical MIKAIA® workflows.

Volker Bruns

December 17, 2024

Digital Pathology Life Science Spatial Biology

2 Articles in Trillium Pathology 2024

We have contributed two article’s to this year’s Trillium Pathology issue. Here are the abstracts, with links to the full articles: V. Bruns, Programming-free Image-Analysis Workflows for IHC, IF and Spatial...

Volker Bruns

July 30, 2024

DNA string visualizing our Medical Buzzwords glossary

Digital Health Digital Pathology Spatial Biology

Glossary of Medical Buzzwords

In the fast-paced world of healthcare, staying informed about the latest medical buzzwords and trends is essential to understanding where the future of medicine is heading. From computer-aided diagnosis and personalized...

Julia Fröhlich

July 15, 2024

Spatial Biology

List of Commercial Spatial Biology Instruments, Assays & Softwares

Spatial Biology is a big hype right now and a rapidly growing discipline, especially spatial proteomics and spatial transcriptomics. It is the intersection of anatomical pathology where the morphology of tissue is...

Volker Bruns

July 9, 2024

Digital Pathology Life Science MIKAIA University Spatial Biology

WSI and Annotation File Format I/O Support in MIKAIA

MIKAIA® supports various I/O formats, find out which ones. Importable whole-slide-image file formats Format / VendorCommentsOME-TIFFBrightfield and fluorescence. Z-stacks and timelines supported (mutually-exclusive). No...

Volker Bruns

May 29, 2024

Digital Pathology MIKAIA University Spatial Biology

MIKAIA Spatial Clustering App

Tumor cells dynamically interact with their microenvironment to stimulate cancer development, progression, and metastasis. To understand the biology of the tumor-immune interactions, it is essential to identify tumoral...

Nathalie Falk

October 9, 2023

Digital Pathology MIKAIA University Spatial Biology

MIKAIA-Analysis of Human Pancreas 4plex Scanned with NanoString GeoMx DSP

In this MIKAIA® University application note, we guide you through the analysis of a common use case, coexpression of marker combinations in islets of Langerhans and surrounding tissue in a pancreas 4plex imaged with...

Nathalie Falk

August 3, 2023

Digital Pathology MIKAIA University Spatial Biology

MIKAIA-Analysis of Human Tonsil 15plex Imaged with Akoya PhenoCycler-Fusion

In this MIKAIA® University application note, we guide you through the analysis of a common use case, coexpression of marker combinations in lymphoid follicles and interfollicular tissue in a tonsil 15plex imaged with...

Nathalie Falk

July 20, 2023

Digital Pathology MIKAIA University Spatial Biology

MIKAIA FL Cell Analysis App

MIKAIA® University Application Note: Analyzing multiplexed immuno fluorescent (mIF) slides MIKAIA® has good support for viewing, annotating and analyzing multi-plexed (aka high-plex, aka hyper-plex) whole-slide images...

Volker Bruns

June 15, 2023

Category - Spatial Biology

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