Lorenzo Farina

Professore associato


farina@diag.uniroma1.it
Stanza: A104
Tel: +39 0677274088
Fax: +39 0677274074
Biografia: 

I received the 'Laurea' degree in Electronics Engineering in 1992 (summa cum laude) from the University of Rome 'La Sapienza' and the PhD in Systems Engineering at the same University. I am currently Associate Professor at the Department of Computer and Systems Science "A. Ruberti" (D.I.S.) of the University of Rome, 'La Sapienza'.

Courses taught:

  • Fondamenti di automatica (Principles of systems and control)
  • Modelli dinamici per l'ingegneria gestionale (Dynamic modeling for industrial engineering)
  • Metodi computazionali per la biologia molecolare (Computational methods for molecular biology)
Pubblicazioni: 

Books

[B1] L. Farina and S. Rinaldi, Positive Linear Systems: Theory and Applications, Pure and Applied Mathematics: A Wiley-Interscience Series of Text, Monographs, and Tracts, John Wiley & Sons, New York, 2000 (Table of contents and reviews)
[B2] L. Benvenuti, A. De Santis and L. Farina (Eds.), Positive Systems. Proceedings of the First Multidisciplinary Symposium on Positive Systems (POSTA 2003). Lecture Notes on Control and Information Sciences 294, Springer-Verlag, Heidelberg, 2003
[B3] L. Benvenuti, A. De Santis, L. Farina, Sistemi dinamici: modellistica, analisi e controllo. McGraw Hill, Milano, 2008 (indice)

 

Journal Papers

       Systems and Control (1994-2006)

[JP1] L.Farina, A note on discrete-time positive realizations, Systems & Control Letters 22 (1994) 467-469
[JP2] L. Farina, Necessary conditions for positive realizability of continuous-time linear systems, Systems & Control Letters 25 (1995) 121-124
[JP3] L. Farina and L. Benvenuti, Positive realizations of linear systems, Systems & Control Letters 26 (1996) 1-9
[JP4] B.D.O. Anderson, M. Deistler, L. Farina and L. Benvenuti, Nonnegative realization of a linear system with nonnegative impulse response, IEEE Transactions on Circuits and Systems-I: Fundamental Theory and Applications 43 (1996) 134-142
[JP5] L. Benvenuti and L. Farina, Discrete-time filtering via charge routing networks, Signal Processing 49 (1996) 207-215
[JP6] L. Farina, Minimal order realizations for a class of positive linear systems, Journal of the Franklin Institute 333B (1996) 893-900
[JP7] L. Farina, On the existence of a positive realization, Systems & Control Letters 28 (1996) 219-226
[JP8] L. Farina and L. Benvenuti, Invariant polytopes of linear systems, IMA Journal of Mathematical Control and Information, 15 (1998) 233-240
[JP9] L. Benvenuti and L. Farina, On the class of linear filters attainable with charge routing networks, IEEE Transactions on Circuits and Systems-II: Analog and Digital Signal Processing 43 (1996) 618-622
[JP10] L. Benvenuti and L. Farina, Constrained control for uncertain discrete-time systems, International Journal on Robust and Nonlinear Control, 8 (1998) 555-565
[JP11] L. Farina and L. Benvenuti, Polyhedral reachable set with positive controls, Mathematics of Control, Signals and Systems 10 (1997) 364-380
[JP12] L. Benvenuti and L. Farina, A note on minimality of positive realizations, IEEE Transactions on Circuits and Systems-I: Fundamental Theory and Applications, 45 (1998) 676-678
[JP13] L. Benvenuti and L. Farina, An Example of how positivity may force realizations of ‘large’ dimension, Systems & Control Letters 36 (1999) 261-266
[JP14] L. Benvenuti, L. Farina and B.D.O. Anderson, Filtering through combination of positive filters,  IEEE Transactions on Circuits and Systems-I: Fundamental Theory and Applications, 46 (1999) 1431-1440 This paper has received the 2001 IEEE CAS Guillemin-Cauer Award
[JP15] M.E. Valcher and L. Farina, An algebraic approach to the construction of polyhedral invariant cones, SIAM J. Matrix Analysis Appl, 22 (2000) 453-471
[JP16] L. Benvenuti, L. Farina, B.D.O. Anderson and F. De Bruyne, Minimal discrete-time positive realizations of transfer functions with positive real poles, IEEE Transactions on Circuits and Systems-I: Fundamental Theory and Applications, 47 (2000) 1370-1377
[JP17] A. De Santis and L. Farina, Identification of positive linear systems with Poisson output transformation,  Automatica  (2002) 38 861-868
[JP18] L. Benvenuti and L. Farina,Invariance and feedback control with state and input constraints,  Int. J. Systems Science, 33 (2002) 45-53
[JP19] L. Benvenuti and L. Farina, The design of fiber-optic filters, Journal of Lightwave Technology, 19 (2001) 1366-1375
[JP20] L. Benvenuti and L. Farina, Positive and compartmental systems,  IEEE Transactions on Automatic Control 47 (2002) 370-373
[JP21] L. Benvenuti, L. Farina and B.D.O. Anderson, The positive side of filters, IEEE Circuits and Systems Magazine, 1, (Third Quarter 2001) 32-36, (invited paper)
[JP22] L. Benvenuti, A. De Santis  and L. Farina, On model consistency in compartmental systems identification, Automatica (2002) 38 1969-1976
[JP23] L. Benvenuti and L. Farina, Minimal positive realizations: a survey of recent results and open problems, Kybernetika (2003) 38 217-228 (Special issue on Max-Puls algebra)
[JP24] L. Benvenuti and L. Farina, Eigenvalue regions for positive systems, Systems & Control Letters (2004) 51 325-330
[JP25] L. Benvenuti and L. Farina, A tutorial on the positive realization problem, IEEE Transactions on Automatic Control, (2004) 49 651-664
[JP26]  L. Benvenuti and L. Farina, The geometry of the reachability set for linear discrete-time systems with positive controls, SIAM J. Matrix Analysis, (2006)  28 306-325
[JP27] L. Benvenuti and L. Farina, Nonnegative matrices in signal processing, Signal Processing (2006) 86 2388-2392
[JP28] L. Farina, Discussion on: "Representation of a Class of MIMO Systems via Internally Positive Realization'', European Journal of Control, ( 2010)  16(3):305-306
[JP29] F. Cacace, L. Farina, A. Germani, C. Manes, Internally positive representation of a class of continuous time systems, IEEE Transactions on Automatic Control (to appear)

 

        Systems Biology (from 2005)

[JP30] M.C. Palumbo, A. Colosimo, A. Giuliani and L. Farina, Functional essentiality from topology features in metabolic networks: a case study in yeast, FEBS Letters (2005) 579 4642-4646
[JP31] Maria Concetta Palumbo, Lorenzo Farina, Alfredo Colosimo, Kyaw Tun, Pawan K. Dhar and Alessandro Giuliani, Networks everywhere? Some general implications of en emergent metaphor, Current Bioinformatics (2006) 1 219-234
[JP32] L. Farina, A. De Santis, G. Morelli and I. Ruberti, Dynamic measure of genes co-regulation, IET Systems Biology (2007) 1 10-17
[JP33] A. Giuliani, M. Tsuchiya, Y. Zhen; A. Colosimo, M.C.Palumbo, L. Farina, M. Crescenzi, A. Mazzola, R. Negri, M. Bianchi, Gene expression waves: cell cycle independent collective dynamics in cultured cells, FEBS Journal (2007)  274 2878-2886 (link)
[JP34]  M.C. Palumbo, A. Colosimo, A. Giuliani and L. Farina, Essentiality is an emergent property of metabolic network wiring, FEBS Letters (2007) 581 2485-2489
[JP35] M.C. Palumbo, L. Farina, A. De Santis, A. Giuliani, A. Colosimo, G. Morelli and I. Ruberti, Collective Behaviour in Gene Regulation: Post-transcriptional Regulation and the Temporal Compartmentalization of Cellular cycles, FEBS Journal  (2008) 275:2364-71. (link)
[JP36] L. Farina, A. De Santis, S. Salvucci, G. Morelli and I. Ruberti, Embedding mRNA stability in correlation analysis of time-series gene expression data, PLoS Computational Biology  (2008) 4(8): e1000141. doi:10.1371/journal.pcbi.1000141 (link)
[JP37] N. Soranzo, M. Zampieri, L. Farina and C. Altafini, mRNA stability and the unfolding of gene expression in the long-period yeast metabolic cycle, BMC Systems Biology  (2009) 3(18) (link)
[JP38] M.C. Palumbo, L. Farina, A. Colosimo and A. Giuliani,  Metabolic Networks. In: Handbook on Biological Networks, World Scientific Publishing Company, ISBN/ISSN: 9812838791 (2009)
[JP39] P. Palumbo, G. Mavelli, L. Farina and L. Alberghina, Networks and Circuits in Cell Regulation, Biochemical and Biophysical Research Communications (2010) 396(4):881-6
[JP40] P. Palumbo, G. Mavelli, L. Farina and A. Germani, Identification of regulatory network motifs from gene expression data,  Journal of Mathematical Modelling and Algorithms, Volume 9, Number 3, 233-245 (2010)
[JP41] G. Romagnoli, E. Cundari, R. Negri, M. Crescenzi, L. Farina, A. Giuliani and M. Bianchi, Synchronous protein cycling in batch cultures of the yeast Saccharomyces cerevisiae at log growth phase Experimental Cell Research 317 (2011) 2958-2968, http://dx.doi.org/10.1016/j.yexcr.2011.09.007
[JP41] M. Fasoli, S. Dal Santo, S. Zenoni, G.B. Tornielli, L. Farina, A. Zamboni, A. Porceddu, L. Venturini, M. Bicego, V. Murino, A. Ferrarini, M. Delledonne and M. Pezzotti, The grapevine expression atlas reveals a deep transcriptome shift driving the entire plant into a maturation program, Plant Cell, Sep 4 (2012)
[JP42] S. Camiolo, L. Farina and A. Porceddu, The relation of codon bias to tissue specific gene expression in Arabidopsis thaliana, Genetics, Aug 5 (2012)
[JP43] F. Cacace, P. Paci, V. Cusimano, A. Germani and L. Farina, Stochastic modeling of  expression kinetics identifies messenger half-lives and reveals sequential waves of co-ordinated transcription and decay, PLoS Computational Biology, vol.8, (2012)
[JP44] S. Dal Santo, G.B. Tonielli, S. Zenoni, L. Farina, M. Fasoli, F. Guzzo, M. Delledonne and M. Pezzotti, The plasticity of the grapevine berry transcriptome, Genome Biology, to appear in June 2013