Abstract
The U-matrix has become a standard visualization of self-organizing feature maps (SOM). Here we present the abstract U-matrix, which formalizes the structures on a U-matrix such that distance calculations between best-matching units w.r.t. the height structures of a U-matrix are precisely defined (U-cell distance). This enables the assessment of the topological correctness of the SOM and the implementation of clustering algorithms that take the structures seen on the U-matrix into account. A weighted Delaunay graph of the U-cell distances allows the calculation of a dendrogram corresponding to the structures of the U-matrix. The method is shown to detect and visualize meaningful cluster structures on difficult artificial and real-life data.
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References
Lötsch, J., Ultsch, A.: A machine-learned knowledge discovery method for associating complex phenotypes with complex genotypes. Application to pain. Journal of Biomedical Informatics 46, 921–928 (2013)
Kohonen, T.: Self-organized formation of topologically correct feature maps. Biol. Cybernet. 43, 59–69 (1982)
Ultsch, A.: Emergence in Self-Organizing Feature Maps. In: International Workshop on Self-Organizing Maps (WSOM 2007). Neuroinformatics Group (2007)
Vesanto, J., Alhoniemi, E.: Clustering of the self-organizing map. IEEE Transactions on Neural Networks / A Publication of the IEEE Neural Networks Council 11, 586–600 (2000)
Sarlin, P., Eklund, T.: Fuzzy Clustering of the Self-Organizing Map: Some Applications on Financial Time Series. In: Laaksonen, J., Honkela, T. (eds.) WSOM 2011. LNCS, vol. 6731, pp. 40–50. Springer, Heidelberg (2011)
Taşdemir, K.: Spectral Clustering as an Automated SOM Segmentation Tool. In: Laaksonen, J., Honkela, T. (eds.) WSOM 2011. LNCS, vol. 6731, pp. 71–78. Springer, Heidelberg (2011)
Delaunay, B.: Sur la sphère vide. Izvestia Akademii Nauk SSSR 7, 793–800 (1934)
Carlsson, G., Mémoli, F.: Characterization, Stability and Convergence of Hierarchical Clustering Methods. J. Mach. Learn. Res. 11, 1425–1470 (2010)
Ultsch, A., Moerchen, F.: ESOM-Maps: tools for clustering, visualization, and classification with Emergent SOM (2005)
Tracey, I., Mantyh, P.W.: The cerebral signature for pain perception and its modulation. Neuron 55, 377–391 (2007)
Cross, S.A.: Pathophysiology of pain. Mayo Clin. Proc. 69, 375–383 (1994)
Julius, D., Basbaum, A.I.: Molecular mechanisms of nociception. Nature 413, 203–210 (2001)
Lötsch, J., Doehring, A., Mogil, J.S., Arndt, T., Geisslinger, G., Ultsch, A.: Functional genomics of pain in analgesic drug development and therapy. Pharmacology & Therapeutics 139, 60–70 (2013)
Mogil, J.S., Wilson, S.G., Chesler, E.J., Rankin, A.L., Nemmani, K.V., Lariviere, W.R., Groce, M.K., Wallace, M.R., Kaplan, L., Staud, R., Ness, T.J., Glover, T.L., Stankova, M., Mayorov, A., Hruby, V.J., Grisel, J.E., Fillingim, R.B.: The melanocortin-1 receptor gene mediates female-specific mechanisms of analgesia in mice and humans. Proc. Natl. Acad. Sci. U S A 100, 4867–4872 (2003)
Cox, J.J., Reimann, F., Nicholas, A.K., Thornton, G., Roberts, E., Springell, K., Karbani, G., Jafri, H., Mannan, J., Raashid, Y., Al-Gazali, L., Hamamy, H., Valente, E.M., Gorman, S., Williams, R., McHale, D.P., Wood, J.N., Gribble, F.M., Woods, C.G.: An SCN9A channelopathy causes congenital inability to experience pain. Nature 444, 894–898 (2006)
Mogil, J.S.: Are we getting anywhere in human pain genetics? Pain 146, 231–232 (2009)
Lötsch, J., Flühr, K., Neddermayer, T., Doehring, A., Geisslinger, G.: The consequence of concomitantly present functional genetic variants for the identification of functional genotype-phenotype associations in pain. Clin. Pharmacol. Ther. 85, 25–30 (2009)
Baron, R., Binder, A., Wasner, G.: Neuropathic pain: diagnosis, pathophysiological mechanisms, and treatment. Lancet Neurol. 9, 807–819 (2010)
Ultsch, A., Moutarde, F.: U*F Clustering: a new performant Cluster-mining method based on segmentation of Self-Organizing Maps. In: International Workshop on Self-Organizing Maps, WSOM 2005 (2005)
Ester, M., Kriegel, H.-P., Sander, S., Xu, X.: A density-based algorithm for discovering clusters in large spatial databases with noise, pp. 226–231 (1996)
Tasdemir, K., Merényi, E.: SOM-based topology visualization for interactive analysis of high-dimensional large datasets. University of Bielefeld, Germany (2012)
Ultsch, A.: The U-Matrix as Visualization for Projections of high-dimensional data. In: Proc. 11th IFCS Biennial Conference (2003)
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Lötsch, J., Ultsch, A. (2014). Exploiting the Structures of the U-Matrix. In: Villmann, T., Schleif, FM., Kaden, M., Lange, M. (eds) Advances in Self-Organizing Maps and Learning Vector Quantization. Advances in Intelligent Systems and Computing, vol 295. Springer, Cham. https://doi.org/10.1007/978-3-319-07695-9_24
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DOI: https://doi.org/10.1007/978-3-319-07695-9_24
Publisher Name: Springer, Cham
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