PT  - JOURNAL ARTICLE
AU  - Tomasz Kusmierczyk
AU  - Michal Lukasik
AU  - Marta Magnowska
AU  - Matylda Roszkowska
AU  - Grzegorz Bokota
AU  - Dariusz Plewczynski
TI  - Computational approach to dendritic spine taxonomy and shape transition analysis
AID  - 10.1101/051227
DP  - 2016 Jan 01
TA  - bioRxiv
PG  - 051227
4099  - http://biorxiv.org/content/early/2016/05/06/051227.short
4100  - http://biorxiv.org/content/early/2016/05/06/051227.full
AB  - The common approach in morphological analysis of dendritic spines is to categorize spines into subpopulations based on whether they are stubby, mushroom, thin, or filopodia. Corresponding cellular models of synaptic plasticity, long-term potentiation, and long-term depression associate synaptic strength with either spine enlargement or spine shrinkage. Although a variety of automatic spine segmentation and feature extraction methods were developed recently, no approaches allowing for an automatic and unbiased distinction between dendritic spine subpopulations and detailed computational models of spine behavior exist.We propose an automatic and statistically based method for the unsupervised construction of spine shape taxonomy based on arbitrary features. The taxonomy is then utilized in the newly introduced computational model of behavior, which relies on transitions between shapes. Models of different populations are compared using supplied bootstrap-based statistical tests.We compared two populations of spines at two time points. The first population was stimulated with long-term potentiation, and the other in the resting state was used as a control. The comparison of shape transition characteristics allowed us to identify differences between population behaviors. Although some extreme changes were observed in the stimulated population, statistically significant differences were found only when whole models were compared. Therefore, we hypothesize that the learning process is related to the subtle changes in the whole ensemble of different dendritic spine structures, but not at the level of single shape classes.The source code of our software is freely available for non-commercial use1.