We use someone else’s CellProfiler pipeline to count the nuclei of cells with a DAPI stain.
Then we proceed counting the micronuclei (small satellite bodies) by hand, calculate the ratio and perform some statistical analyses on the numbers. There must be a way to automate the second half of the procedure, too. I attached a typical example picture so that you know what i am talking about.
Can someone please let me know how they would go about this?
We have access to ImageJ/Fiji, CellProfiler, Imaris, and even Ilastik. I also feel comfortable executing and even (limited) editing code in e.g. R or C++ and we have the Keras library installed which would run on the CPU of an iMAC (no NVIDIA card installed).
Many thanks in advance!
I’ll let you know what worked for us.!
Edit: I just realized there are some posts on micronuclei already - all concerning CellProfiler. However, according this publication they miss > 8 % of these tiny speckles. And the posts are quite old, maybe someone developed a new/better approach since.