In this work we aimed to investigate in silico the influence of the common experimental factors on the determination of the oligomerization parameter in the quantitative photoactivated localization microscopy (qPALM). qPALM exploits statistical characteristics of the clusters of individual blinks to deduce the oligomerization of the labeled protein. The aim of this work is to investigate how the properties of the label (number of blinks before photobleaching and fraction of incorrectly folded protein), protein surface density and impurities on the surface may influence the determination of the dimerization fraction. To achieve this, we synthesize sets of image series in different conditions, process them using common protocol, and compare the true and obtained dimerization fraction.