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...
Author - Volker Bruns
Volker Bruns
MIKAIA Plugin API: “Plug in your own AI”
This app note describes the MIKAIA Plugin API. It can be used by bioinformaticians to plug in their own AI script, e.g., written in Python or any other language, into MIKAIA® and this way put their AI into the hands of...
MIKAIA: Build H&E Analysis using Multiple AIs
MIKAIA® is specifically designed for researchers in academia, CROs, biotech, pharma. One of the challenges is that researchers by design do unique things. For this reason, MIKAIA® apps do not represent individual side...
MIKAIA: Differential IHC Cell Detection by ROI
This article is based on a our presentation “IHC Cell Analysis — More than just Cell Counting: A proposed Workflow” at the European Conference for Digital Pathology (ECDP) 2024 in Vilnius, Lithuania...
The Digital Pathologist’s Cockpit: Image Management Systems (IMS) – Free Download of List of IMSes
In conventional pathology, the pathologists mostly interacted with their LIS (lab information system). Synonyms are PIS (pathology information system) or LIMS (laboratory information & management system)...
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...
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...
MIKAIA: Quantifying Perineural Invasion in Duplex IHC
This MIKAIA® App Note shows how to quantify tumor in proximity to nerve fibers (perineural invasion) in a IHC duplex-stained tissue section, where nerves appear red (antigen: S100) and tumor brown (antigen:...
Digital Pathology AI Companies — List of Commercial AIs (CE-IVDR, FDA, RUO)
2022 and 2023 have been breakthrough years for AI in digital pathology. Many new startups, backed by lots of venture capital, as well as established vendors have released AIs cleared for clinical routine. As of today...
Annotation Concepts in MIKAIA for Whole-Slide-Images
The first step to creating a supervised Digital Pathology AI is to annotate whole-slide-images. MIKAIA® uses various annotation concepts. Working with MIKAIA® is easier when these annotation concepts are known and...
