Automated analysis of biological images

Synapse analysis

To elucidate changes of neuronal populations in the cortex, it is mandatory to calculate the amount of neurons using different marker proteins. As neurons consist of somata, dendrites and an axon, quantification of sections is complicated and usually done manually. BioNukleo uses a filter tool to visualize the somata exclusively and quantifies 3D-images, i.e. z-stacks, captured by the confocal microscope.  A comparable quantification is used for the analysis of synaptic marker proteins. Confocal microscopes and immunohistochemistry can visualize distinctly synapses located on neurons in the cortex. In the images captured, it is complicated to differentiate to which dendrite the synaptic densities belong. By using automated analysis, the overlap of dendrites and marker proteins can be quantified easily and automatically in hundreds of images at once. The setup of automated image analysis for neurons can be used in further projects for a minimal fee. This way, scientists can start new experiments right away and don’t lose time for the quantification.


In situ hybridization


Localization of specific DNA or RNA strands using complementary probes can be combined with immunohistochemistry and DAPI staining. BioNukleo can analyze co-localization and intensity of the signals and define and characterize the DAPI staining.


Detectable characteristics:

Nuclei/ cell cycle analysis

Number and area of structures


Intensity of signals

Nuclei analysis

Automated identification of nuclei and cell cycle phases of individual cells in a large population is important for cell cycle studies. Based on the DNA content, the cell cycle phases can be defined in a large population undergoing division. Accordingly, the intensity of DAPI staining is reduced during Interphase compared to mitotic nuclei.


Detectable characteristics:

Number of Nuclei

Cell cycle analysis

Intensity of DNA content