Publications

This is the list of recent publications (2011-2024)

2024

• Review of patient gene profiles obtained through an NMF-based framework to determine the role inflammation plays in neuroblastoma pathogenesis, A. Boccarelli, N. Del Buono, F. Espositoto to appear on International Journal of Molecular Sciences. 

2023

• Improving Color Image Binary Segmentation Using Nonnegative Matrix Factorization, C. Castiello, N. Del Buono, F. Esposito, vol 14108 Lecture Notes in Computer Science series, 2023

• Bi-level algorithm for optimizing hyperparameters in penalized nonnegative matrix factorization

N. Del Buono, F. Esposito, L. Selicato, R. Zdunek, Applied Mathematics and Computation, Volume 457, 15 November 2023, 128184, https://doi.org/10.1016/j.amc.2023.128184

• Cluster of resistance-inducing genes in MCF-7 cells by estrogen, insulin, methotrexate, and tamoxifen extracted via NMF. A. Boccarelli, N. Del Buono, F. Esposito, Pathology - Research and Practice, Volume 242, February 2023, 154347, https://doi.org/10.1016/j.prp.2023.154347

• CrystalMELA: A new Crystallography MachinE LeArning platform for crystal system determination.  N. Corriero,  R. Rizzi,  G. Settembre,  N. Del Buono,  D. Diacono, J Appl Crystallogr. 2023 Apr 1; 56(Pt 2): 409–419, 2023 Feb 28. doi: 10.1107/S1600576723000596

• Machine learning approaches for predicting Crystal Systems: a brief review and a case study, Gaetano Settembre, Nicola Corriero, Nicoletta Del Buono, Flavia Esposito, Rosanna Rizzi,  Proceedings of 8th International Conference on Machine Learning, Optimization, and Data science - LOD 2022 Ed(s) Giuseppe Nicosia, Panos Pardalos, et al.  Lecture Notes in Computer Science 13810, pp 1-15, https://doi.org/10.1007/978-3-031-25599-1_8

2022

• Soil moisture sensors information enhanced by statistical methods in a reused water irrigation framework, Anthony Giorgio, Nicoletta Del Buono, Marco Berardi, Michele Vurro, Gaetano Alessandro Vivaldi, Sensors. 2022; 22(20):8062. https://doi.org/10.3390/s2220806

• Detecting anomalies in marine data: a framework for time series analysis, Nicoletta Del Buono, Flavia Esposito, Grazia Gargano, Laura Selicato, Nicolò Taggio, Giulio Ceriola, Daniela Iasillo, to appear in The 8th International Conference on Machine Learning, Optimization and Data science - LOD 2022 Ed(s) Giuseppe Nicosia, Panos Pardalos, et al.  Lecture Notes in Computer Science.

• Toward a New Approach for Tuning Regularization Hyperparameter in NMF. Del Buono, N., Esposito, F., Selicato, L. (2022). In: Machine Learning, Optimization, and Data Science. LOD 2021. Lecture Notes in Computer Science, vol 13163. Springer, Cham. https://doi.org/10.1007/978-3-030-95467-3_36

• Colorectal cancer in Crohn's disease evaluated with genes belonging to fibroblasts of the intestinal mucosa selected by NMF. A. Boccarelli, N. Del Buono, F. Esposito, Pathol Res Pract 2022 Jan;229:153728. doi: 10.1016/j.prp.2021.153728. Epub 2021 Nov 29.

2021

• Analysis of fibroblast genes selected by NMF to reveal the potential crosstalk between ulcerative colitis and colorectal cancer, A. Boccarelli, N. Del Buono, F. Esposito, Experimental and Molecular Pathology, 2021, https://doi.org/10.1016/j.yexmp.2021.104713 

• A new ensemble method for detecting anomalies in Gene Expression Matrices, Laura Selicato * , Flavia Esposito , Grazia Gargano , Maria Carmela Vegliante , Giuseppina Opinto , Gian Maria Zaccaria , Sabino Ciavarella , Attilio Guarini , Nicoletta Del Buono, Mathematics 2021, 9(8), 882; https://doi.org/10.3390/math9080882 

• Anomalies Detection in gene expression matrices: towards a new approach, N. Del Buono and F. Esposito L. Selicato, M.C. Vegliante, Proceedings of the 14th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2021) - Volume 3: BIOINFORMATICS, pages 162-169 ISBN: 978-989-758-490-9

2020

• Nonnegative Matrix Factorization models for knowledge extraction from biomedical and other real world data. F. Esposito, N. Del Buono e L. Selicato: Proceeding in Applied Mathematics & Mechanics, ISSN: 1617-7061 (online), 2020, doi: 10.1002/pamm.202000032

• Methods for Hyperparameters Optimization in Learning Approaches: an overview. In: Nicosia G. et al. (eds) Machine Learning, Optimization, and Data Science. LOD 2020. Lecture Notes in Computer Science, vol 12565. Springer, Cham. https://doi.org/10.1007/978-3-030-64583-0_11

• Hybrid Projective Nonnegative Matrix Factorization based on $\alpha$-Divergence: Image Feature Extraction and Data Clustering, M.T. Belachew and N. Del Buono,  Applied Mathematics and Computation, Vol. 369, 15 March 2020 (scopus: 2-s2.0-85074131817).

• A new NMF framework for selecting biomarkers in the landscape of genes of heterogeneous cancer associated fibroblast populations, F. Esposito, A. Boccarelli , N. Del Buono, Bioinformatics and Biology Insights. 2020; 14: doi: 10.1177/1177932220906827

2019

• Nonnegative Matrix Factorization approach for color images segmentation, F. Esposito, C. Castiello, N. Del Buono, Extended Abstract, Workshop on Low-Rank Models and Applications, LRMA 2019, 12-13 September 2019, Mons, Belgium

• Orthogonal Joint Sparse NMF for Microarray Data Analysis, N. Del Buono, F. Esposito, N. Gillis, J. Math. Biol. (2019) 79: 223. https://doi.org/10.1007/s00285-019-01355-2

2018

• On some practical issues related to Nonnegative Matrix Factorization in Microarray Data Analysis context, N. Del Buon0 and F. Esposito, 2018,  Series in Applied Sciences, Mathematical Modelling, Numerical and Data Analysis, Volume 1 December 2018, Edited by Margherita Carletti, Universitas Studiorum, pag 109-130, ISBN 978-88-3369-044-5 , doi: 10.17605/OSF.IO/KR2J3

• Improving knowledge on the activation of bone marrow fibroblasts in MGUS and MM disease through the automatic extraction of genes via a Nonnegative Matrix Factorization approach on gene expression profiles, A. Boccarelli, F. Esposito, M. Coluccia, M. A. Frassanito, A. Vacca and N. Del Buon0, J.Transl. Med. 2018 Aug 3;16(1):217. doi: 10.1186/s12967-018-1589-1

• Preface: Structural Dynamical Systems: Computational aspects. N. Del Buono, C. Elia, R. Garrappa, A. Pugliese. Discrete & Continuous Dynamical Systems - B, 2018, 23 (7) : i-i. doi: 10.3934/dcdsb.201807i 

• Computational approaches to locate crossing/sliding regions and their basins of attraction of non-smooth dynamical systems, A. Colombo N. Del Buono, L. Lopez, A. Pugliese, Discrete & Continuous Dynamical Systems - B, 2018, 23 (7), page 2911-2934, doi: 10.3934/dcdsb.2018166

• A Framework for Intelligent Twitter Data Analysis with Nonnegative Matrix Factorization,  G. Casalino, C. Castiello, N. Del Buono, C. Mencar, International Journal of Web Information Systems, 2018, doi: 10.1108/IJWIS-11-2017-0081, 2018 

• Tri-orthogonal NMF for monitoring the upwelling phenomenon using Sentinel-3 products. F. Esposito, K. Karamvasis, V. Karathanassi, N. Del Buono, Technical Report 10/2018, Department of Mathematics, University of Bari.

2017

• Intelligent Twitter Data Analysis based on Nonnegative Matrix Factorizations, G. Casalino, C. Castiello, N. Del Buono, C. Mencar,  O. Gervasi et al. (Eds.): ICCSA 2017, Part I, LNCS 10404, 2017, DOI: 10.1007/978-3-319-62392-4_14

• Q-matrix Extraction from Real Response Data Using Nonnegative Matrix Factorizations, G. Casalino, C. Castiello, N. Del Buono, F. Esposito, C. Mencar, O. Gervasi et al. (Eds.): ICCSA 2017, Part I, LNCS 10404,  2017, DOI: 10.1007/978-3-319-62392-4_15

• Exploring hidden information in sparse NMF, F. Esposito, N. Del Buono,  Rapporto del Dipartimento di Matematica n. 8 del 17.07.2017

• HLA data analysis in patients affected by kidney diseases and comparison with healthy subjects, N. Del Buono, F. Esposito, C. Castiello, M. Margiotta, Rapporto del Dipartimento di Matematica n.6 del 08.06.2017.

• A Dynamical System Approach for Continuous Nonnegative Matrix Factorization, Belachew, M.T., N. Del Buono,  Mediterr. J. Math. (2017) 14: 14. doi:10.1007/s00009-016-0837-y

• Dynamical modeling of liver Aquaporin-9 expression and glycerol permeability in hepatic glucose metabolism, G. Calamita, P. Gena, N. Del Buono, M. D'Abbicco, M. Mastrodonato, M. Berardi, M. Svelto, L. Lopez, European Journal of Cell Biology, http://dx.doi.org/10.1016/j.ejcb.2016.12.003

2016

• Breast cancer’s microarray data: pattern discovery using Nonnegative Matrix Factorizations, N. Del Buono, F. Esposito, F. Fumarola, A. Boccarelli, and M. Coluccia, LCNS, Second International Workshop on Machine learning, Optimization and big Data - MOD 2016 , Editors: G. Giuffrida, G.Nicosia, P.Pardalos, LNCS, 10122, 2016

• Robust Embedded Projective Nonnegative Matrix Factorization for Image Analysis,  M. T. Belachew, N. Del Buono,  Pattern Anal Applic, 1-16, 2016, doi:10.1007/s10044-016-0545-z

• A model for the hepatic glucose metabolism based on Hill and step functions, M D’Abbicco, N Del Buono, P Gena, M Berardi, G Calamita, L Lopez,  Journal of Computational and Applied Mathematics 292, 746-759, 2016

• Nonnegative Matrix Factorizations for Intelligent Data Analysis, G Casalino, N Del Buono, C Mencar, Non-negative Matrix Factorization Techniques, Part of the series Signals and Communication Technology, Springer, 49-74 2016

• SDS2014 Guest Editorial, N. Del Buono, R. Garrappa, G. Spaletta Mathematics and Computers in Simulation Volume 125, 1-2, 2016

2015

• Direct event location techniques based on Adams multistep methods for discontinuous ODEs, N Del Buono, L Lopez,  Applied Mathematics Letters 49, 152-158, 2015

• Non-negative matrix tri-factorization for co-clustering: An analysis of the block matrix,  N Del Buono, G Pio, Information Sciences 301, 13-26, 2015s

• Guest editorial: Structural dynamical systems, discontinuity and numerical methods, N Del Buono, Mathematics and Computers in Simulation 110 (issue 1), 1-2 2015

2014-2011

• On the equivalence between the sigmoidal approach and Utkin's approach for piecewise-linear models of gene regulatory networks, N Del Buono, C Elia, L Lopez, SIAM Journal on Applied Dynamical Systems 13 (3), 1270-1292, 2014

• Part-based data analysis with masked non-negative matrix factorization, G Casalino, N Del Buono, C Mencar, Computational Science and Its Applications–ICCSA 2014, 440-454, 2014

• Event driven approach for simulating gene regulation networks, M Berardi, N Del Buono, Computational Science and Its Applications–Lecture Notes in Computer Science 2014, 415-425, 2014

• Subtractive clustering for seeding non-negative matrix factorizations, G Casalino, N Del Buono, C Mencar, Information Sciences 257, 369-387,  2014

• Fattorizzazioni matriciali non negative per l’analisi dei dati nell’educational data mining, G Casalino, C Castiello, N Del Buono, C Mencar, DIDAMATICA2012,  2012

• Nonnegative matrix factorizations performing object detection and localization G Casalino, N Del Buono, M Minervini, Applied Computational Intelligence and Soft Computing 2012, 15, 2012

• Subtractive initialization of nonnegative matrix factorizations for document clustering, G Casalino, N Del Buono, C Mencar Fuzzy Logic and Applications, 188-195, 2011

• Guest Editorial: Some important aspects on Structural Dynamical Systems and their numerical computation, N Del Buono, Mathematics and Computers in Simulation 81 (5), 929-931 2011