Phd in NETWORK ONCOLOGY AND PRECISION MEDICINE

email: lorenzo.farina@uniroma1.it
phone: +39 0677274088

room: A106

TRAINING
1992 Five-year degree in Electronic Engineering, 110/110 cum laude, Sapienza, University of Rome
1998 PhD in Systems Engineering, Sapienza, University of Rome
ACADEMIC DUTIES
1996-2000 Researcher ING-INF / 04 Sapienza, University of Rome
2000-2013 Associate Professor ING-INF / 04 Sapienza, University of Rome
2012 National qualification as full professor in ING-INF / 04
2013-0DAY Associate Professor, ING-INF / 06 Sapienza, University of Rome
OTHER ASSIGNMENTS
1992-1993 Scientific consultant for ecological modeling, Interdepartmental Research Center in Territorial and Environmental Informatics, Politecnico di Milano
1993-1994 Scholarship, CNR
1994 Emergency program consultant, UNICEF, East and Southern Africa Regial office
1995 Management of a remote monitoring project for heart patients, Tecnobiomedica S.p.A.
1997 Departmental visitor Research School Informati Sciences and Engineering, Australian Natial University, Canberra, Australia
TEACHING EXPERIENCE
1994 Sapienza “Automatic Control” Course, University of Rome, Latina
1994 Course "Positive linear systems" Systems Theory Center (CNR), Milan
1995 Sapienza “Positive linear systems” course, University of Rome, Latina
1999-2001 "Modeling Environmental Systems" Course Five-year degree in Environmental and Territorial Engineering, Sapienza, University of Rome
1999-2001 "Modeling and Simulation" course, Fifteen-year degree in Computer Engineering, Sapienza, University of Rome
2002 “Systems Theory” course, Master's degree in management engineering, Sapienza, University of Rome
2002-2004 Course "Dynamic Modeling for Management Engineering", Master's degree in management engineering, Sapienza, University of Rome
2003-2014 “Foundations Automatic Control” course, Master's degree in management engineering, Sapienza, University of Rome
2015-2017 "Bioinformatics" Course, Master's Degree in Biomedical Engineering, Sapienza, University of Rome
2015-2019 "Models Biological Systems" Course, Master's Degree in Biomedical Engineering, Sapienza, University of Rome
2018-2019 "Bioengineering for Genomics" course, master's degree in biomedical engineering, Sapienza, University of Rome
2018-2020 "Modeling and Simulation Biomolecular Dynamical Systems" course, degree in Bioinformatics Sapienza, University of Rome
2019-TODAY "Bioinformatics and Computatial Medicine" Course, Master's Degree in Statistical Sciences, Sapienza, University of Rome
2021-0DAY "Computational System Biology" Course, Degree in Bioinformatics, Sapienza, University of Rome
SEMINARS, LESSONS, COURSES
2002 Lecture “Positive systems and the multi-disciplinary flavor systems theory”, Yale University, USA
2002 Lecture "The design fiber optic filters", AT&T Labs – Research, Middletown, NJ, USA
2004 "Positive linear systems" course Graduate School in Systems and Control 2004 - 2005, Katholieke Universiteit Leuven, Belgium
2004, "The positive side filters", Hamilton Institute Workshop Nonnegative Matrices: Theory and Applications, July 11th-14th 2004, Dublin
2004 Lecture "Tolerance and failure propagation analysis metabolic networks", Workshop "Complexity and Modeling Biological Networks", German Research Center for Biotechnology, Braunschweig, Germany, October 4-6-8, 2004
2004 Lecture "Dynamic models gene-to-gene interactions", PhD in Biophysics, Sapienza University of Rome, May 19, 2004
2004 Lecture "Structure and dynamics the regulation systems in the post-genomic research", Advanced course in Molecular Biotechnology, Department of Genetics and Molecular Biology, Sapienza University of Rome
2004 Lecture "Regulation of biochemical networks as interconnections: the behavioral approach." BCB 2004, Second Bertinoro Computational Biological Meeting, June 12-19, 2004
2005 Seminar "Computational challenges in the post-genomic era" UNIVERSITY OF PADUA
2006 Seminar "The systems biology approach to molecular biology", University of L'Aquila
2006 Seminar "Inferring gene networks from gene expression time series", Internatial School for Advanced Studies (SISSA), Trieste
2007 Seminar “Knowledge Engineering for systems biology”, Oncogenomic Center, Regina Elena Cancer Institute
2008 Lecture "Leads and lags: gene relationships beyond co-expression", BiCi Workshop Biological Networks: modeling, analysis and integration, 16-20 September, Bertinoro, 2008
2009 Seminar "Behavioral dynamic modeling fast responses: the E. coli SOS system as a case study" Center for Biological Systems Analysis, February 4, 2009, Freiburg (Germany)
2009 Lecture "Links, flows and perturbations: systemic responses biological networks", Workshop "Network pharmacology", Fondazie Sigma-tau and Istituto Superiore di Sanità
2010 Lecture "Dynamics gene expression in post-transcriptional regulation", Yeast Model Convention, September 22-25 2010, Rome
2013 Lecture "Biological models and mathematical models", Ing Seminar, Science and technology of the 21st century, Biomedical Campus - Casalmentano Convention Center, Rome, 10-13 October 2013
2013 Seminar “Modeling issues in the post-genomic era”, Sapienza School for Advanced Studies
2014 Seminar “Complex biological networks”, Sapienza School for Advanced Studies
2014 Lecture "In-vivo genome wide identification of messengers stability from time-series expression data", EPIGEN workshop - Project
Epigenomic Flag (CNR), Mondello 9-12 September 2014
2017 Seminar "Heuristics and metaphors in bioinformatics", National Academy of Lincei, Palazzina dell’auditorio. Rome, 31 May 2017
2018 Plenary lesson "The emerging paradigm network medicine", 3rd SysBio School Computational Biology, May 10th, 2018
2018 Seminar "Network medicine in a nutshell", "Santa Lucia" Foundation, Rome
2018 Lecture "Key node roles' in co-expression networks: from grapevine to cancer", Sapienza / Harvard First Internatial Cference Network Medicine and Big Data: The Transformation of Medicine September 24-26, 2018, Di Roma, Italy
2019 Seminar "Introduction to network medicine", Sapienza Information-Based Technology Innovation Center for Health
2019 Lecture "The SWIM methodology - a network medicine approach to the identification key genes: applications in oncology", Workshop "From a modern to a transformative medicine: a tribute to William Osler", Sapienza Università Di Roma, May 16th, 2019, Rome
2019 Seminar "Artificial intelligence in oncology", Top Seminar of oncology "Breathing Ideas" of 28-29 June 2019, Boehringer Ingelheim, Italy
2020 Network medicine adventures: a computational survival kit for physicians, STITCH Sapienza Informati Based
Technology Innovation Center for Health, March 4th
2020 Precision medicine: what barriers remain for multidisciplinarity, STITCH Sapienza Informati Based Technology Innovation Center for Health, October 20th
2020 Network-based approaches: a paradigm shift in medicine, Precision Medicine: from tumor biology to clinical trials, December 3rd, Fondazie Policlinico Gemelli
2021 Network medicine and immune oncology: a new frontier, Master in Immuno oncology, Sapienza Università / Roche Foundati for persalized medicine, February 18th
2021 The network language for precision medicine, Master in Immuno cology, Sapienza Università / Roche Foundation for personalized medicine, October 21st
PUBLICATION OF INSTITUTIONAL ACTIVITIES AND SCIENTIFIC EVENTS
2002-2005 Scientific coordinator of the “Incontri al Chiostro”, a series of public meetings held in the “Cloister” of the Faculty of Engineering, Sapienza University of Rome. Speakers: Domenico Parisi, Lucio Russo, Giorgio Israel, Piergiorgio Odifreddi, Ernesto Di Mauro, Marcello Cini, Maurizio Ferraris, Antio Lepschy, Oliviero Stock.
2013-2018 Co-chairman of the International Symposium Positive Systems: Theory and Applications
(POSTA), editions 2003 (before), 2016 and 2018 and Co-editor of the Conference proceedings published in the Lecture Notes in Control and Information Sciences, Springer-Verlag, Ltd
2017 Proponent and editor (with Giuseppe Macino and Rodolfo Negri) Degree in Bioinformatics, Sapienza, University of Rome.
2019 Proponent and editor (with Antella Polimeni, Stefania Basili, Franco Marinozzi and Zaccaria del Prete) appointed by the Dean of the I3S faculty, of the degree in Medicine and Surgery HT, Sapienza, University of Rome.
EDITORIAL COLLEGES, MAGAZINES, COMPANIES, AWARDS AND DOCTORATES
2001 "Guillemin-Cauer Best Paper Award" of the IEEE Transactions Circuits and Systems II, with L. Benvenuti and B.D.O. Anders
2003-2004 Member of the teaching staff of the doctorate “Systems engineering”, Sapienza University of Rome
2003 AND 2016 Member of the scientific committee of the International Symposium Positive Systems, Theory and Applicatis (POSTA).
2005-2008 Member of the jury of the “Ruberti Prize”, IEEE Control Systems Society
2006-2009 Member of the teaching staff of the doctorate in Biophysics, Sapienza University of Rome
2013-TODAY Member of the GNB (National Bioengineering Group)
2014 SysBio award 2014 for the best article of the year, Plant Cell (2014), 26 (12), pp. 4617-4635
2018-2021 Research Associate, Institute for Systems Analysis and Computer Science (IASI - CNR)
2018-OGGIMember the Sapienza / Harvard "Network Medicine Csortium" https://www.network-medicine.org/
2018 Member of the Board Teachers, PhD in Innovative Biomedical Technologies in Clinical Medicine, Sapienza University of Rome
2019-TODAY Vice-president of the study council of “Bioinformatics”, Sapienza University of Rome
2018 Member of the commission that awarded the honorary doctorate in "Innovative Biomedical Technologies in Clinical Medicine", Sapienza University of Rome, to Prof. Joseph Loscalzo, Director of the Department of Medicine, Brigham and Women Hospital, Harvard University
2021-TODAY Member of the "Biology" Editorial Board
2021-TODAY Member of the "Bioengineering" Editorial Board
2019-TODAY Member of the Board Teachers, PhD in Network Oncology and Precision Medicine, Sapienza University of Rome.
BOOKS
2000 L. Farina, S. Rinaldi, Positive Linear Systems: Theory and Applications, Pure and Applied Mathematics: A Wiley-Interscience Series Text, Monographs, and Tracts, John Wiley & Ss, New York, 2000.
2003 L. Benvenuti, A. De Santis and L. Farina (Eds.), Positive Systems. Proceedings the First Multidisciplinary Symposium Positive Systems (POSTA 2003). Lecture Notes on Control and Information Sciences, v. 294, Springer-Verlag, Heidelberg
2008 L. Benvenuti, A. De Santis, L. Farina. Dynamic systems for information engineering and economics and management: modeling, analysis and control. McGraw Hill, 2008.
2017 F. Cacace, L. Farina, R. Setola and A. Germani (Eds.), Positive Systems. Proceedings the Fifth Internatial Symposium Positive Systems (POSTA 2016). Lesson Notes Control and Information Sciences, v. 471, Springer-Verlag, Heidelberg (2017)