1. Demo with existing slides

In this demo you can test HER2 FISH quantification on preloaded 3-channel breast tumor images. You navigate to an area of interest, select small rectangles representing background and nucleus areas. Then you select an area to analyze by drawing a rectangle or polygon, and press 'Analyze'.

The results will be returned to you as 1) a ratio of HER2 (red) to CEP17 (green) signals, and 2) as a layer with variable transparency highlighting the detected and counted signals.

Continue to the demo
 

2. Upload your own images

For this demo you can upload either a series of images representing different color channels and focus layers, or premade composite images.

After uploading you will be prompted to specify what channel/layer each uploaded image represents. A composite image is then created on the server for HER2 FISH quantification as described above.

Continue to the upload demo

This function is being moved to a new server (April 17th). Please check back later.

3. Download FishJ macro for ImageJ

From here you can download and install FishJ to your own computer. Installation instructions and user guide to FishJ are also included in FishJ zip file.

Download FishJ (zip file)

 

Authors

Juho Konsti¹, Johan Lundin¹, Mervi Jumppanen^2,3, Mikael Lundin¹, Arttu Viitanen², Jorma Isola²

Affiliations of authors:

¹Biomedical Informatics Research Group, Department of Oncology, University of Helsinki, Helsinki, Finland;
²Institute of Medical Technology, University of Tampere, Tampere, Finland;
³Department of Pathology, Sein�joki Central Hospital, Sein�joki, Finland

References

1. Juho Konsti, Johan Lundin, Mervi Jumppanen, Mikael Lundin, Arttu Viitanen, Jorma Isola. A public-domain image processing tool for automated quantification of fluorescence in situ hybridization signals.
J Clin Pathol. Published Online First: 10 August 2007. doi:10.1136/jcp.2007.048991
PubMed