Nonsmooth nonnegative matrix factorization (nsNMF)

IEEE Transactions on Pattern Analysis and Machine Intelligence
Alberto Pascual-MontanoRoberto D Pascual-Marqui

Abstract

We propose a novel nonnegative matrix factorization model that aims at finding localized, part-based, representations of nonnegative multivariate data items. Unlike the classical nonnegative matrix factorization (NMF) technique, this new model, denoted "nonsmooth nonnegative matrix factorization" (nsNMF), corresponds to the optimization of an unambiguous cost function designed to explicitly represent sparseness, in the form of nonsmoothness, which is controlled by a single parameter. In general, this method produces a set of basis and encoding vectors that are not only capable of representing the original data, but they also extract highly localized patterns, which generally lend themselves to improved interpretability. The properties of this new method are illustrated with several data sets. Comparisons to previously published methods show that the new nsNMF method has some advantages in keeping faithfulness to the data in the achieving a high degree of sparseness for both the estimated basis and the encoding vectors and in better interpretability of the factors.

References

Oct 1, 1994·International Journal of Psychophysiology : Official Journal of the International Organization of Psychophysiology·R D Pascual-MarquiD Lehmann
Feb 21, 2002·Vision Research·Gershon Buchsbaum, Orin Bloch
Aug 10, 2002·Bioinformatics·Amos TanayRon Shamir
Apr 3, 2003·Genome Research·Yuval KlugerMark Gerstein
Jul 2, 2003·Environmental Science & Technology·Pentti PaateroShelly I Eberly
Jul 12, 2003·Bioinformatics·Andreas Heger, Liisa Holm
Oct 10, 2003·Bioinformatics·Qizheng ShengBart De Moor
Jan 31, 2004·Bioinformatics·M DugasP Dirschedl
Mar 16, 2004·Proceedings of the National Academy of Sciences of the United States of America·Jean-Philippe BrunetJill P Mesirov
May 1, 1996·Network : Computation in Neural Systems·G F Harpur, R W Prager
Oct 20, 2006·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Sara C Madeira, Arlindo L Oliveira

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Citations

Jun 2, 2011·Journal of Mathematical Biology·Xingpeng JiangJonathan Dushoff
Oct 15, 2008·Bioinformatics·Lucie N HutchinsJoel H Graber
Jun 3, 2008·Nucleic Acids Research·E Mejía-RoaA Pascual-Montano
Apr 5, 2013·Genome Research·Eugenia G Giannopoulou, Olivier Elemento
Jan 12, 2008·International Journal of Neural Systems·Andrzej Cichocki, Rafal Zdunek
Jul 17, 2008·Computational Intelligence and Neuroscience·Rafal Zdunek, Andrzej Cichocki
Jul 6, 2010·BMC Bioinformatics·Renaud Gaujoux, Cathal Seoighe
Aug 1, 2006·BMC Bioinformatics·Alberto Pascual-MontanoRoberto D Pascual-Marqui
Jan 28, 2006·BMC Bioinformatics·Monica ChagoyenAlberto Pascual-Montano
Mar 1, 2006·BMC Bioinformatics·Pedro Carmona-SaezAlberto Pascual-Montano
Jun 21, 2008·Computational Intelligence and Neuroscience·Junying ZhangYue Wang
Nov 6, 2014·Computational and Mathematical Methods in Medicine·Deng-ao LiJin Zhang
May 30, 2008·Computational Intelligence and Neuroscience·Daniel Soukup, Ivan Bajla
Jul 31, 2007·NeuroImage·Gabriele LohmannMarkus Ullsperger
Apr 21, 2009·Human Brain Mapping·Pedro A Valdés-SosaMaría Antonieta Bobes
Jul 31, 2010·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Xiaoxu Han
Jan 1, 2013·IEEE Transactions on Neural Networks and Learning Systems·Yong XiangSong Guo
Mar 1, 2013·IEEE Transactions on Neural Networks and Learning Systems·Olga ZoidiIoannis Pitas
Dec 24, 2009·IEEE Transactions on Image Processing : a Publication of the IEEE Signal Processing Society·Stefanos Zafeiriou, Maria Petrou
Jan 20, 2009·IEEE Transactions on Neural Networks·Stefanos Zafeiriou
Nov 2, 2011·IEEE Transactions on Neural Networks·Zhaoshui HeAndrzej Cichocki
Apr 24, 2008·Computational Intelligence and Neuroscience·Kevin E HeinrichRamin Homayouni

Apr 17, 2012·Neurocomputing·Robert Peharz, Franz Pernkopf
Sep 21, 2011·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Renaud Gaujoux, Cathal Seoighe
Apr 19, 2015·BMC Bioinformatics·Edgardo Mejía-RoaAlberto Pascual-Montano
Dec 20, 2014·Neural Networks : the Official Journal of the International Neural Network Society·Wenjun HuShitong Wang
Jun 28, 2016·Neural Computation·Karthik Devarajan, Vincent C K Cheung
Feb 6, 2016·IEEE Transactions on Neural Networks and Learning Systems·Zuyuan YangYue Lai
Dec 7, 2017·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Rong ZhuYing Guo
Sep 7, 2017·Proceedings of the National Academy of Sciences of the United States of America·Xin FangBernhard O Palsson
Apr 22, 2017·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Nienke M E ScheltensUNKNOWN Amsterdam Dementia Cohort

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