title: Extending Ripley's K-Function to Quantify Aggregation in 2-D Grayscale Images.
abstract: In this work, we describe the extension of Ripley's K-function to allow for overlapping events at very high event densities. We show that problematic edge effects introduce significant bias to the function at very high densities and small radii, and propose a simple correction method that successfully restores the function's centralization. Using simulations of homogeneous Poisson distributions of events, as well as simulations of event clustering under different conditions, we investigate various aspects of the function, including its shape-dependence and correspondence between true cluster radius and radius at which the K-function is maximized. Furthermore, we validate the utility of the function in quantifying clustering in 2-D grayscale images using three modalities: (i) Simulations of particle clustering; (ii) Experimental co-expression of soluble and diffuse protein at varying ratios; (iii) Quantifying chromatin clustering in the nuclei of wt and crwn1 crwn2 mutant Arabidopsis plant cells, using a previously-published image dataset. Overall, our work shows that Ripley's K-function is a valid abstract statistical measure whose utility extends beyond the quantification of clustering of non-overlapping events. Potential benefits of this work include the quantification of protein and chromatin aggregation in fluorescent microscopic images. Furthermore, this function has the potential to become one of various abstract texture descriptors that are utilized in computer-assisted diagnostics in anatomic pathology and diagnostic radiology.
authors.affiliation: Okinawa Institute of Science and Technology (OIST) Graduate University, Okinawa, Japan.|Faculty of Medicine, Cairo University, Cairo, Egypt.
authors.forename: Mohamed
authors.initials: M
authors.lastname: Amgad
authors.affiliation: Okinawa Institute of Science and Technology (OIST) Graduate University, Okinawa, Japan.
authors.forename: Anri
authors.initials: A
authors.lastname: Itoh
authors.affiliation: Okinawa Institute of Science and Technology (OIST) Graduate University, Okinawa, Japan.
authors.forename: Marco Man Kin
authors.initials: MM
authors.lastname: Tsui
mesh_terms: D017360:Arabidopsis / Q000166:cytology / Q000235:genetics / Q000378:metabolism; D029681:Arabidopsis Proteins / Q000235:genetics / Q000378:metabolism; D002467:Cell Nucleus / Q000235:genetics / Q000378:metabolism; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D008962:Models, Theoretical; D009154:Mutation; D012984:Software
chemical_list: D029681:Arabidopsis Proteins