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Updated: Feb 10, 2026

Mapping the Emergent Spatial Organization of Mammalian Cells using Micropatterns and Quantitative Imaging
Published on: April 30, 2019
Denoising Autoencoder Self-Organizing Map (DASOM)
Christos Ferles1, Yannis Papanikolaou2, Kevin J Naidoo3
1Scientific Computing Research Unit, Faculty of Science, University of Cape Town, Rondebosch, 7701, South Africa; Department of Chemistry, Faculty of Science, University of Cape Town, Rondebosch, 7701, South Africa.
Abstract:
In this report, we address the question of combining nonlinearities of neurons into networks for modeling increasingly varying and progressively more complex functions. A fundamental approach is the use of higher-level representations devised by restricted Boltzmann machines and (denoising) autoencoders. We present the Denoising Autoencoder Self-Organizing Map (DASOM) that integrates the latter into a hierarchically organized hybrid model where the front-end component is a grid of topologically ordered neurons. The approach is to interpose a layer of hidden representations between the input space and the neural lattice of the self-organizing map. In so doing the parameters are adjusted by the proposed unsupervised learning algorithm. The model therefore maintains the clustering properties of its predecessor, whereas by extending and enhancing its visualization capacity enables an inclusion and an analysis of the intermediate representation space. A comprehensive series of experiments comprising optical recognition of text and images, and cancer type clustering and categorization is used to demonstrate DASOM's efficiency, performance and projection capabilities.
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