Publications


Books

  1. A. Mucherino, P. Papajorgji, P.M. Pardalos, Data Mining in Agriculture, 274 pages, Springer, 2009. View a detailed description. Buy it!

  2. S. Cafieri, A. Mucherino, G. Nannicini, F. Tarissan, L. Liberti (Eds.), Proceedings of the 8th Cologne-Twente Workshop on Graphs and Combinatorial Optimization, CTW 2009, Paris, France, June 2-4 2009. View table of contents. Download the book of proceedings.

International journals

  1. C. Lavor, L. Liberti, A. Mucherino, The interval Branch-and-Prune Algorithm for the Discretizable Molecular Distance Geometry Problem with Inexact Distances, to appear in Journal of Global Optimization, 2012. Preliminary version available on Optimization Online from January 2011. Show abstract.

  2. C. Lavor, L. Liberti, N. Maculan, A. Mucherino, Recent Advances on the Discretizable Molecular Distance Geometry Problem, European Journal of Operational Research, 2012. Currently available online only. Show abstract.

  3. A. Mucherino, C. Lavor, L. Liberti, The Discretizable Distance Geometry Problem, Optimization Letters, Online First Articles, 2011. Show abstract.

  4. C. Lavor, J. Lee, A. Lee-St.John, L. Liberti, A. Mucherino, M. Sviridenko, Discretization Orders for Distance Geometry Problems, Optimization Letters, Online First Articles, 2011. Show abstract.

  5. C. Lavor, L. Liberti, N. Maculan, A. Mucherino, The Discretizable Molecular Distance Geometry Problem, Computational Optimization and Applications, Online First Articles, 2011. Show abstract.

  6. C. Lavor, A. Mucherino, L. Liberti, N. Maculan, On the Computation of Protein Backbones by using Artificial Backbones of Hydrogens, Journal of Global Optimization 50 (2), 329-344, 2011. Show abstract. Download paper.

  7. L. Liberti, C. Lavor, A. Mucherino, N. Maculan, Molecular Distance Geometry Methods: from Continuous to Discrete, International Transactions in Operational Research 18 (1), 33–51, 2011. Show abstract. Download paper.

  8. C. Lavor, A. Mucherino, L. Liberti, N. Maculan, Discrete Approaches for Solving Molecular Distance Geometry Problems using NMR Data, International Journal of Computational Biosciences 1 (1), 88-94, 2010. Show abstract. Download paper.

  9. A. Mucherino, A. Masello, Statistical Analysis on the Globular Shape of Protein Conformations, JP Journal of Biostatistics 4 (1), 1-12, 2010. Show abstract. Download paper.

  10. A. Mucherino, P.J. Papajorgji, P.M. Pardalos, A Survey of Data Mining Techniques Applied to Agriculture, Operational Research: An International Journal 9 (2), 121–140, 2009. Show abstract. Download paper.

  11. A. Mucherino, S. Costantini, D. di Serafino, M. D'Apuzzo, A. Facchiano, G. Colonna, Towards a Computational Description of the Structure of all-alpha Proteins as Emergent Behaviour of a Complex System, Computational Biology and Chemistry 32 (4), 233-239, 2008. Show abstract. Download paper.

  12. S. Cafieri, M. D'Apuzzo, M. Marino, A. Mucherino, G. Toraldo, Interior Point Solver for Large-Scale Quadratic Programming Problems with Bound Constraints, Journal of Optimization Theory and Applications 129 (1), 55-75, 2006. Show abstract. Download paper.

National journals

  1. A. Mucherino, C. Lavor, L. Liberti, N. Maculan, On the Definition of Artificial Backbones for the Discretizable Molecular Distance Geometry Problem, Mathematica Balkanica 23 (3-4), 289–302, 2009. Show abstract. Download paper.

Conference papers (referred)

  1. A. Mucherino, C. Lavor, L. Liberti, A Symmetry-Driven BP Algorithm for the Discretizable Molecular Distance Geometry Problem, IEEE Conference Proceedings, Computational Structural Bioinformatics Workshop (CSBW11), International Conference on Bioinformatics & Biomedicine (BIBM11), Atlanta, GA, USA, 390-395, 2011.

  2. A. Mucherino, Extending the Definition of β-Consistent Biclustering for Feature Selection, IEEE Conference Proceedings, Federated Conference on Computer Science and Information Systems (FedCSIS11), Workshop on Computational Optimization (WCO11), Szczecin, Poland, 269–274, 2011. Show abstract. Download paper.

  3. A. Mucherino, A. Urtubia, Feature Selection for Datasets of Wine Fermentations, Proceedings of the 10th International Conference on Modeling and Applied Simulation (MAS11), Rome, Italy, 309–313, 2011. Show abstract. Download paper.

  4. A. Mucherino, G. Ruß, Recent Developments in Data Mining and Agriculture, IbaI Conference Proceedings, Industrial Conference on Data Mining (ICDM11), Workshop "Data Mining in Agriculture" (DMA11), New York City, USA, 90–98, 2011. Show abstract. Download paper.

  5. L. Liberti, B. Masson, J. Lee, C. Lavor, A. Mucherino, On the Number of Solutions of the Discretizable Molecular Distance Geometry Problem, Lecture Notes in Computer Science 6831, W. Wang, X. Zhu, D-Z. Du (Eds.), Proceedings of the 5th Annual International Conference on Combinatorial Optimization and Applications (COCOA11), Zhangjiajie, China, 322-342, 2011. Show abstract. Preliminary version available on arXiv.

  6. A. Mucherino, I. Wohlers, G.W. Klau, R. Andonov, Sparsifying Distance Matrices for Protein-Protein Structure Alignments, Proceedings of the 10th Cologne-Twente Workshop on Graphs and Combinatorial Optimization (CTW11), Rome, Italy, 211-214, 2011. Show abstract. Download paper.

  7. L. Liberti, B. Masson, C. Lavor, A. Mucherino, Branch-and-Prune Trees with Bounded Width, Proceedings of the 10th Cologne-Twente Workshop on Graphs and Combinatorial Optimization (CTW11), Rome, Italy, 189-193, 2011. Download paper.

  8. A. Mucherino, M. Fuchs, X. Vasseur, S. Gratton, Variable Neighborhood Search for Robust Optimization and Applications to Aerodynamics, to appear in Lecture Notes in Computer Science 7116, Proceedings of the 8th International Conference on Large-Scale Scientific Computations (LSSC11), Sozopol, Bulgaria, June 2011. Show abstract. Preliminary version submitted as Cerfacs Technical Report TR/PA/11/25 in April 2011.

  9. A. Mucherino, C. Lavor, T. Malliavin, L. Liberti, M. Nilges, N. Maculan, Influence of Pruning Devices on the Solution of Molecular Distance Geometry Problems, Lecture Notes in Computer Science 6630, P.M. Pardalos and S. Rebennack (Eds.), Proceedings of the 10th International Symposium on Experimental Algorithms (SEA11), Crete, Greece, 206–217, 2011. Show abstract. Download paper.

  10. C. Lavor, L. Liberti, A. Mucherino, On the Solution of Molecular Distance Geometry Problems with Interval Data, IEEE Conference Proceedings, International Workshop on Computational Proteomics (IWCP10), International Conference on Bioinformatics & Biomedicine (BIBM10), Hong Kong, 77-82, 2010. Show abstract. Download paper.

  11. A. Mucherino, L. Liberti, C. Lavor, MD-jeep: an Implementation of a Branch & Prune Algorithm for Distance Geometry Problems, Lectures Notes in Computer Science 6327, K. Fukuda et al. (Eds.), Proceedings of the Third International Congress on Mathematical Software (ICMS10), Kobe, Japan, 186-197, 2010. Show abstract. Download paper.

  12. A. Mucherino, C. Lavor, L. Liberti, N. Maculan, Strategies for Solving Distance Geometry Problems with Inexact Distances by Discrete Approaches,, Proceedings of Toulouse Global Optimization 2010 (TOGO10), Toulouse, France, 93-96, 2010. Show abstract. Download paper.

  13. A. Mucherino, A. Urtubia, Consistent Biclustering and Applications to Agriculture, IbaI Conference Proceedings, Proceedings of the Industrial Conference on Data Mining (ICDM10), Workshop "Data Mining in Agriculture" (DMA10), Berlin, Germany, 105-113, 2010. Show abstract. Download paper.

  14. A. Mucherino, C. Lavor, L. Liberti, E-G. Talbi, A Parallel Version of the Branch & Prune Algorithm for the Molecular Distance Geometry Problem, IEEE Conference Proceedings, ACS/IEEE International Conference on Computer Systems and Applications (AICCSA10), Hammamet, Tunisia, 1-6, 2010. Show abstract. Download paper.

  15. C. Lavor, A. Mucherino, L. Liberti, N. Maculan, An Artificial Backbone of Hydrogens for Finding the Conformation of Protein Molecules, IEEE Conference Proceedings, Computational Structural Bioinformatics Workshop (CSBW09), Washington D.C., USA, 152-155, 2009. Show abstract. Download paper.

  16. A. Mucherino, C. Lavor, The Branch and Prune Algorithm for the Molecular Distance Geometry Problem with Inexact Distances, Proceedings of World Academy of Science, Engineering and Technology 58, International Conference on Bioinformatics and Biomedicine (ICBB09), Venice, Italy, 349-353, 2009. Show abstract. Download paper.

  17. C. Lavor, A. Mucherino, L. Liberti, N. Maculan, Computing Artificial Backbones of Hydrogen Atoms in order to Discover Protein Backbones, IEEE Conference Proceedings, International Multiconference on Computer Science and Information Technology (IMCSIT09), Workshop on Computational Optimization (WCO09), Mragowo, Poland, 751-756, 2009. Show abstract. Download paper.

  18. A. Mucherino, L. Liberti, C. Lavor, N. Maculan, Comparisons between an Exact and a Meta-Heuristic Algorithm for the Molecular Distance Geometry Problem, ACM Conference Proceedings, Genetic and Evolutionary Computation Conference (GECCO09), Montréal, Canada, 333-340, 2009. Show abstract. Download paper.

  19. A. Mucherino, C. Lavor, N. Maculan, The Molecular Distance Geometry Problem Applied to Protein Conformations, Proceedings of the 8th Cologne-Twente Workshop on Graphs and Combinatorial Optimization (CTW09), Paris, France, 337-240, 2009. Download paper.

  20. F. Marinelli, O. de Weck, D. Krob, L. Liberti, A. Mucherino, A General Framework for Combined Module- and Scale-based Product Platform Design, 2nd International Symposium on Engineering Systems Proceedings, MIT, Cambridge, Massachusetts, June 2009. Show abstract. Download paper.

  21. A.R. Kammerdiner, A. Mucherino, P.M. Pardalos, Application of Monkey Search Meta-Heuristic to Solving Instances of the Multidimensional Assignment Problem, Lecture Notes in Control and Information Sciences 381, M.J. Hirsch, C. Commander, P.M. Pardalos, R. Murphey (Eds.), Proceedings of the 8th International Conference on Optimization and Cooperative Control Strategies (CCO08), Gainesville, Florida, 385–397, 2009. Show abstract. Download paper.

  22. C. Lavor, L. Liberti, A. Mucherino, N. Maculan, On a Discretizable Subclass of Instances of the Molecular Distance Geometry Problem, ACM Conference Proceedings, 24th Annual ACM Symposium on Applied Computing, Hawaii, USA, 804-805, 2009. Show abstract. Download paper.

  23. A. Mucherino, O. Seref, Monkey Search: A Novel Meta-Heuristic Search for Global Optimization, AIP Conference Proceedings 953, O. Seref, O.E. Kundakcioglu, P.M. Pardalos (Eds.), Proceedings of the Conference “Data Mining, System Analysis and Optimization in Biomedicine”, Gainesville, Florida, March 2007, 162–173, 2007. Show abstract. Download paper.

Book chapters (referred)

  1. A. Mucherino, O. Seref, Modeling and Solving Real Life Global Optimization Problems with Meta-Heuristic Methods, In: "Advances in Modeling Agricultural Systems", Springer Optimization and Its Applications 25, P.J. Papajorgji, P.M. Pardalos (Eds.), 403–420, 2008. Show abstract. Download paper.

  2. G. Ceci, A. Mucherino, M. D’Apuzzo, D. di Serafino, S. Costantini, A. Facchiano, G. Colonna, Computational Methods for Protein Fold Prediction: an Ab-Initio Topological Approach, In: "Data Mining in Biomedicine", Springer Optimization and Its Applications 7, P.M. Pardalos, V. Boginski and A. Vazacopoulos (Eds.), 391–429, 2007. Show abstract. Download paper.

Extended abstracts (referred)

  1. L. Liberti, C. Lavor, A. Mucherino, An Exponential Algorithm for the Discretizable Molecular Distance Geometry Problem is Polynomial on Proteins, Proceedings of the 7th International Symposium on Bioinformatics Research and Applications (ISBRA11), Book of extended abstracts 40-43, Changsha, China, May 2011. Download extended abstract.

  2. A. Mucherino, C. Lavor, L. Liberti, The Discretizable Molecular Distance Geometry Problem: from Ideal to Real Instances, Proceedings of the conference ROADEF 2011, Saint Etienne, France, March 2010. Download extended abstract.

  3. A. Mucherino, L. Jourdan, E-G. Talbi, A Heuristic for Biclustering based on a Bilevel Reformulation,, Proceedings of the International Conference on Metaheuristics and Nature Inspired Computing (META10), Djerba, Tunisia, October 2010. Download extended abstract.

  4. A. Mucherino, S. Cafieri, A New Heuristic Algorithm for Consistent Biclustering, Proceedings of the EU/MEeting 2010, Lorient, France, June 2010. Download extended abstract.

  5. A. Mucherino, C. Lavor, L. Liberti, E.-G. Talbi, On Suitable Parallel Implementations of the Branch & Prune Algorithm for Distance Geometry, Proceedings of the Grid5000 Spring School, Lille, France, April 2010. Download extended abstract.

  6. A. Mucherino, C. Lavor, L. Liberti, N. Maculan, A Discrete Approach for Finding the Conformation of Molecules from NMR Data, Proceedings of the conference ROADEF 2010, Toulouse, France, February 2010. Download extended abstract.

  7. C. Lavor, L. Liberti, A. Mucherino, N. Maculan, Recent Results on the Discretizable Molecular Distance Geometry Problem, Proceedings of the conference ROADEF 2009, Nancy, France, 283-284, 2009. Download extended abstract.

Other

  1. L. Liberti, C. Lavor, B. Masson, A. Mucherino, Polynomial Cases of the Discretizable Molecular Distance Geometry Problem, arXiv e-print, arXiv:1103.1264v1, March 2010. Show abstract.

  2. A. Mucherino, S. Cafieri, A New Heuristic for Feature Selection by Consistent Biclustering, arXiv e-print, arXiv:1003.3279v1, March 2010. Show abstract.

  3. A. Mucherino, O. Seref, P.M. Pardalos, Simulating Protein Conformations through Global Optimization, arXiv e-print, arXiv:0811.3094v1, November 2008. Show abstract.

Theses

  1. A. Mucherino, Geometric Aspects in the Simulation of Protein Folding Processes (in Italian), PhD Thesis, Second University of Naples. December 18, 2005.

  2. A. Mucherino, Quadratic Optimization: Algorithms and Software for Dense Problems (in Italian), Master Thesis, Second University of Naples. October 30, 2001.


Back Home