CNR Consiglio Nazionale delle Ricerche
IAC Istituto per le Applicazioni del Calcolo
Via dei Taurini 19, 00185 Roma
ITALIA
email: paolo.tieri@cnr.it - p.tieri@iac.cnr.it - p.tieri@unibo.it
website: http://www.iac.cnr.it/~tieri/
tel +39 06 49 93 73 49
EDUCATION
Università di Bologna, Italy, 2006-2009 Philosophiæ Doctor in Systems Biology & Experimental Pathology
Università di Bologna, Italy, 1999 Laurea magistralis (4-yrs M.Sc. equiv.) in Physics, final thesis in Biomedical Physics
PROFESSIONAL ACTIVITIES
Sapienza University, Data Science program, http://datascience.i3s.uniroma1.it/it Rome, Italy, 2017-now
Adjunct Professor, Bioinformatics & Network Biology
CNR National Research Council IAC Institute for Computing Applications http://www.iac.cnr.it, Rome, Italy, 2011-now
Staff Scientist, Computational Biology, Network Biology, Systems Biology
PICB CAS-MPG Partner Institute for Computational Biology http://www.picb.ac.cn, Shanghai, China, Mar-Sep 2012
Visiting Scientist, Network Biology of Rheumatoid Arthritis (CAS-Awarded)
Harvard Medical School, Dana Farber Cancer Institute, Vidal Lab, ttp://ccsb.dfci.harvard.edu/, Boston, USA, Oct 2005-Feb 2006
Visiting Research Fellow, mathematical models for protein-protein interaction networksl
Università di Bologna, Italy, 2003-2011 http://www.dimes.unibo.it/
Research fellowship, Systems Biology & Systems immunology; lecturing activity for the Biotechnology M.Sc. courses at UNIBO
ENEA National Research Agency, http://www.enea.it/, Bologna, Italy, 2000-2002
Technology Transfer Specialist, EU-funded Tech-Transfer Project Manager
“Mario Negri Sud” Research Institute S. Maria Imbaro, Italy, 1998 http://tinyurl.com/negrisud-2006
Trainee in the Radiation protection Unit, Dept. Cell Biology and Oncology
POSTGRADUATE COURSES
2006 , Gulbenkian Inst. Lisboa (PT), course “Aging Research with Bioinformatic Methods”
2005 , Biocomputing Lab, Bologna Univ. (I), 6 th Winter school “How complex is functional genomics?”
2004 , Biocomputing Lab, Bologna Univ. (I), 5 th Winter school “State of the art of protein-protein interaction: the role of in silico approach”
2003 , Biocomputing Lab, Bologna Univ. (I), 4 th Winter school “Hot topics in structural genomics”
2003 , Dept. Mathematics, Firenze Univ. (I), School of mathematical modelling for biology
2002 , Inst. Theor. Biol., Humboldt Univ. Berlin (D), Autumn school of theoretical biology
2000 , CINECA supercomputing center, Bologna (I), Summer school in Parallel Computing
MAIN PROJECTS AND GRANTS as Proposer/Principal Investigator/co-PI
• EU H2020, iPC, individualized Paediatric Cure, 2019-2022, H2020-ICT-2018-2 Project no. 826121, researcher , https://ipc-project.eu
• COST Cooperation in Science and Technology, 2016-2020, Action CA 15120 OpenMultiMed Open Multiscale Systems Medicine science network, management committee member, scientific missions coordinator http://www.cost.eu/COST_Actions/ca/CA15120
• European Union FP7, 2013-2015, MISSION-T2D Multiscale Immune System Simulator for the ONset of Type 2 Diabetes integrating genetic, metabolic and nutritional data, Work Package Leader for WP6 Model Integration http://www.mission-t2d.eu/
• CAS Chinese Academy of Sciences, 2012, Visiting Fellowship Award, in collaboration with Prof C Nardini group, P.I. network biology approach in rheumatoid arthritis
• EU FP7, 2012-2014, KEPAMOD Knowledge exchange in processing and analysis of multi-omic data, Marie Curie Action, grant no. 294935, co-P.I.
PUBLICATIONS
De Assis Ribeiro HAL, Maioli TU, De Freitas LM, Tieri P, Castiglione F (2019) A athematical model of murine macrophage infected with Leishmania sp. Proceedings BIBM 2018 IEEE International Conference on Bioinformatics and Biomedicine, 8621351, pp. 1425-1430
De Freitas LM, Maioli TU, De Assis Ribeiro HAL, Tieri P, Castiglione F (2019) A mathematical model of Chagas disease infection predicts inhibition of the immune system. Proceedings BIBM 2018 IEEE International Conference on Bioinformatics and Biomedicine, 8621389, pp. 1374-1379
Palma A, Jarrah AS, Tieri P, Cesareni G, Castiglione F (2018) Gene Regulatory Network Modeling of Macrophage Differentiation Corroborates the Continuum Hypothesis of Polarization States. Front Physiol. 9:1659. doi: 10.3389/fphys.2018.01659. PMID: 30546316
Palumbo MC, Morettini M, Tieri P, Diele F, Sacchetti M, Castiglione F (2018) Personalizing physical exercise in a computational model of fuel homeostasis, PLoS Comput. Biol., 14(4), e1006073.doi:10.1371/journal.pcbi.1006073
Tieri P, Farina L, Petti M, Astolfi L, Paci P, Castiglione F (2018) Network inference and reconstruction in Bioinformatics, in Encyclopedia of Bioinformatics and Computational Biology, 1st Ed., Editors-in-Chiefs: Ranganathan S, Nakai K, Schonbach C, in press
Zanin M, Chorbev I, Stres B, Stalidzans E, Vera J, Tieri P, Castiglione F, Groen D, Zheng H, Baumbach J, Schmid JA, Basilio J, Klimek P, Debeljak N, Rozman D, Schmidt HHHW (2017)
Community effort endorsing multiscale modelling, multiscale data science and multiscale computing for systems medicine. Brief Bioinform. doi: 10.1093/bib/bbx160
Ribeiro H, Maioli TU, de Freitas LM, Tieri P, Castiglione F. (2017) Modeling immune response to leishmania species indicates adenosine as an important inhibitor of Th-Cell activation. Frontiers in Cell and Infect Microbiol, doi:10.3389/fcimb.2017.00309
Moreau JF, Pradeu T, Grignolio A, Nardini C, Castiglione F, Tieri P, Capri M, Salvioli S, Taupin JL, Garagnani P, Franceschi C. (2016) The emerging role of ECM crosslinking in T cell mobility as a hallmark of immunosenescence in humans. Ageing Research Reviews, 35:322-335, doi:10.1016/j.arr.2016.11.005
Mendez T, Castiglione F, Tieri P, Felicori L. (2016) Systems and Synthetic Biology applied to Health, Curr Dev Biotech Bioeng, Elsevier, doi:10.1016/B978-0-444-63660-7.00009-7
Castiglione F, Tieri P, Palma A, Jarrah AS. (2016) Statistical ensemble of gene regulatory networks of macrophage differentiation. BMC Bioinformatics, 17:506, doi:10.1186/s12859-016-1363-4
Bartoletti-Stella A, Chiaro G, Calandra-Buonaura G, Contin M, Scaglione C, Barletta G, Cecere A, Garagnani P, Tieri P, Ferrarini A, Piras S, Franceschi C, Delledonne M, Cortelli P, Capellari S. (2015) A patient with PMP22-related hereditary neuropathy and DBH-gene-related dysautonomia. J Neurol. 262:2373-81, doi: 10.1007/s00415-015-7896-z
Tieri P, Nardini C, Dent JE, eds (2015) Multi-omic Data Integration (ebook), Publisher: Frontiers Media SA, ISBN: 978-2-88919-648-7
Nardini C, Dent J, Tieri P (2015). Editorial: Multi-omic Data Integration. Front. Cell Dev. Biol. 3:46. doi:10.3389/fcell.2015.00046
Cappuccio A, Tieri P, Castiglione F. (2015) Multi-scale modeling in immunology, a review. Brief Bioinform. 10.1093/bib/bbv012
Tieri P, Prana V, Colombo T, Santoni D, Castiglione F. (2014) Multi-scale Simulation of T Helper Lymphocyte Differentiation. In: Campos S, editor. Advances in Bioinformatics and Computational Biology. Lecture Notes in Computer Science. 8826: Springer International Publishing; p. 123-34 doi: 10.1007/978-3-319-12418-6_16
Tieri P, Zhou XY, Zhu L, Nardini C. (2014) Multi-omic landscape of rheumatoid arthritis: re-
evaluation of drug adverse effects. Front. Cell Dev. Biol. , 2:59. doi: 0.3389/fcell.2014.00059
Grignolio A, Mishto M, Faria AMC, Garagnani P, Franceschi C, Tieri P (2014) Towards a liquid self: how time, geography, and life experiences reshape the biological identity. Front. Immunol. 5:153. doi:10.3389/fimmu.2014.00153
Castiglione F, Tieri P, De Graaf A, Franceschi C, Liò P, Van Ommen B, Mazzà C, Tuchel A,
Bernaschi M, Samson C, Colombo T, Castellani GC, Capri M, Garagnani P, Salvioli S, Nguyen VA, Bobeldijk-Pastorova I, Krishnan S, Cappozzo A, Sacchetti M, Morettini M, Ernst M (2013) The onset of type 2 diabetes: proposal for a multi-scale model. JMIR Res Protoc. 2(2):e44. doi: 10.2196/resprot.2854
Tieri P, Nardini C (2013) Signalling Pathway Database Usability: Lessons Learned. Mol Biosystems 9(10), 2401-7. doi: 10.1039/c3mb70242a
Garagnani P, Giuliani C, Pirazzini C, Olivieri F, Bacalini MG, Ostan R, Mari D, Passarino G, Monti D, Bonfigli AR, Boemi M, Ceriello A, Genovese S, Sevini F, Luiselli D, Tieri P, Capri M, Salvioli S, Vijg J, Suh Y, Delledonne M, Testa R, Franceschi C (2013) Centenarians as super-controls to assess the biological relevance of genetic risk factors for common age-related diseases: A proof of principle on type 2 diabetes. Aging 5(5), 373-85
Tieri P, Bellavista E, Termanini A, Salvioli S, Capri M, Franceschi C (2012) Charting the NF-kB interactome map. PLoS ONE 7(3): e32678. doi:10.1371/journal.pone.0032678
Tieri P, de la Fuente A, Termanini A, Franceschi C (2011) Integrating omics data for signaling pathways, interactome reconstruction, and functional analysis. Methods Mol. Biol. 719, 415-33 rated “must read” by FACULTY of 1000
Tieri P, Grignolio A, Zaikin A, Mishto M, Remondini D, Castellani GC, Franceschi C (2010) Network, degeneracy and bow tie: integrating paradigms and architectures to grasp the complexity of the immune system. Theoretical Biology and Medical Modelling, 7, 32
Termanini A, Tieri P, Franceschi C (2010) Encoding the states of interacting proteins to facilitate biological pathways reconstruction. Biology Direct, 5, 52
Grignolio A, Tieri P, Castellani GC (2010) Networks, Degeneracy and Bow ties: A Unifying Perspective of Immunological Paradigms and Architectures, in: Immunology Today - Three Historical Perspectives under Three Theoretical Horizons, Grignolio A Ed., Bononia University Press, Quaderni del CIG series, 2, 53-68
Cevenini E, Bellavista E, Tieri P, Castellani G, Lescai F, Francesconi M, Mishto M, Santoro A, Valensin S, Salvioli S, Capri M, Zaikin A, Monti D, de Magalhães JP, Franceschi C (2010) Systems Biology and Longevity: an emerging approach to identify innovative anti-aging targets and strategies, Curr. Pharm. Des.,16, 802-813
Tieri P, Grignolio A, (2009) Paradigms and architectures in the immune system: from degeneracy to bow ties, in: ACUME2 Living Texts conference series proceedings, PNW Polish Scientific Publishers, 57-70
Capri M, Salvioli S, Cevenini E, Celani L, Sevini F, Bellavista E, Lanzarini C, Lukas S, Lescai F, Tieri P, Monti D, Franceschi C (2009) Aging and Longevity in Animal Models and Humans, in: Life-Span Extension, Aging Medicine, Sell C et al. eds., Springer/Humana Press, DOI: 10.1007/978-1-60327-507-1_11, 175-191
Tieri P (2008) The immune system: look who's talking, in: Biocomplexity at the cutting edge of Physics, Systems Biology and Humanities, Bononia University Press, Quaderni del CIG series, 1, 145-154
Cevenini E, Invidia L, Lescai F, Salvioli S, Tieri P, Castellani GC, Franceschi C (2008) Human models of aging and longevity. Expert Opin. Biol. Ther. 8 (9), 1393-1405
Salvioli S, Capri M, Tieri P, Loroni J, Barbi C, Invidia L, Altilia S, Santoro A, Pirazzini C, Pierini M, Bellavista E, Alberghina L, Franceschi C (2008) Different types of cell death in organismal aging and longevity: state of the art and possible systems biology approach, Curr. Pharm. Des., 14, 226-236
Salvioli S, Tieri P, Castellani GC, Capri M, Barbi C, Santoro A, Altilia S, Invidia L, Pierini M, Bellavista E, Monti D, Franceschi C (2007) Longevity genes across species: conservation versus evolvability, Inv. Surviv. J., 112-118
Remondini D, Neretti N, Sedivy JM, Franceschi C, Milanesi L, Tieri P, Castellani GC (2007) Networks from gene expression time series: characterization of correlation patterns, Int. J. Bifurcat. Chaos, 17 (7), 2477-2483
Tieri P, Castellani GC, Remondini D, Valensin S, Loroni J, Salvioli S, Franceschi C (2007) Capturing Degeneracy in the Immune System, in: In silico Immunology, D. Flower and J. Timmis Eds., Springer Verlag, New York, ISBN 9780387392387, pp 109-118
Remondini D, Tieri P, Valensin S, Verondini E, Franceschi C, Bersani F, Castellani GC (2006) A general learning rule for network modeling of neuroimmune interactome, in: Neural Nets, WIRN/NAIS 2005 Proceedings, Lecture Notes in Computer Science, Springer Verlag, 3931 , pp 286-292
Salvioli S, Capri M, Valensin S, Tieri P, Monti D, Ottaviani E, Franceschi C (2006) Inflamm-aging, Cytokines and Aging: state of the art, new hypotheses on the role of mitochondria and new perspectives from systems biology, Curr. Pharm. Des., 12, 3161-71
Tieri P, Valensin S, Latora V, Castellani GC, Marchiori M, Remondini D, Franceschi C (2005)
Quantifying the relevance of different mediators in the human immune cell network, Bioinformatics, 21 , 1639-1643
Tieri P, Valensin S, Franceschi C, Morandi C, Castellani GC (2003) Memory and selectivity in evolving scale-free immune networks, in Artificial Immune Systems, ICARIS 2003 Proceedings, Lecture Notes in Computer Science, Springer-Verlag, 2787, pp.93-101
PRESENTATIONS, TALKS AND CONFERENCES
European Association of Systems Medicine Conference , 8 Nov. 2018, Utrecht, NL, talk title
“Multiscale computational immunology”
Garuda Workshop: Re-imagining Connectivity in Biology and Medicine , 15-16 May 2017, Data Science course, Sapienza University, organizer.
The “omic” era: dalla ricerca di base alla medicina personalizzata, 26 May 2016, Accademia
Medica di Roma, Italy, talk “Integrazione di dati multi-omici e systems medicine”.
MMH2015 1st International Conference on Computational Modeling of Metabolic Health,
Inflammation and Diabetes , 6-7 October 2015, Computer Laboratory, University of Cambridge, UK, co-organizer.
Nautilus, the storytelling of science , RAI Italian national public broadcasting company, Rome, May 2015, TV episode “I nemici della rete”, http://tinyurl.com/nautilus-p-tieri
The 2nd Intl. Conference on Mathematics and Statistics , 2-5 April 2015, American University of Sharjia, UAE, talk “The multi-omic landscape of rheumatoid arthritis”.
Network Biology, a short course 2015 , Universidade Federal de Minas Gerais, 9-13 Feb 2015, Belo Horizonte, Brazil.
Seminars at PICB 2012 , Partner Institute for Computational Biology, Shanghai, 21 Mar 2012, talk title “Network Immunology”.
SBH SysBioHealth Symposium 2011 , Univ Bologna, IT, 14-15 Dec 2011, talk title “The
immunological Self: a reappraisal”.
Network Biology, a short course 2010 , Univ Univ Bologna, IT, June 2011.
RecombSat 2010 , Columbia Univ, NYC, USA, 15-20 Nov. 2010, poster “Charting the NF-kB pathway interactome map”.
NetSci 2010 , MIT Boston, USA, 12-14 May 2010, talk title “Charting the NF-kB pathway interactome map”.
SBH SysBioHealth Symposium 2009, Univ Milano Bicocca, Milan, IT, 25-27 November 2009, talk title “Reconstruction and analysis of the NF-kB pathway interactome”.
ICMSB'09, 11th International Conference on Molecular Systems Biology , CAS-MPG PICB,
Shanghai, China, 21-25 June 2009, talk title “Reconstruction of the NF-kB Interactome”.
SBH 2008, SysBioHealth Symposium 2008 , 'Galvani' Center, Univ Bologna, IT, 24-25 November 2008, keynote lecture “A systemic and evolutionary approach to immune responses”.
Living texts: interdisciplinary approaches and methodological commonalities in biology and
textual analysis, E-Science Institute, Edinburgh, UK, 16-17 Oct 2008, invited talk “Protocols, bow ties and the immune system”.
Biophys 08, Biology and Beyond 2008, Arcidosso, IT, 10-12 Sept 2008, invited talk “Degeneracy in complex systems: a biological point of view”.
Immunology Day, Institute of Advanced Studies & Academy of Sciences, Bologna, 7 May 2008, talk “Degeneracy and Complexity in the Immune System”.
SBH 2007, SysBioHealth Symposium 2007, Univ Milano Bicocca, Milan, IT, 16-19 October 2007, poster and talk title “Towards an unifying perspective of the fundamental properties and structural principles governing the immune system”.
ARBM 2006, Aging Research with Bioinformatic Methods, Gulbenkian Inst., Lisboa, PT, 6-9
November 2006, talk title “Network approaches in gene expression data & systems biology”.
ECI 2006, 1st Joint Meeting of European National Societies of Immunology , Paris, F, 6-9
September 2006, poster title “Modeling of immune networks”.
SIMAI 2006, VII International conference of the Italian Society for Applied Mathematics , Baia Samuele, Ragusa, IT, 22-26 May 2006, chair of the session “Mathematical and Computational Modeling in Bioinformatics and Systems Biology”.
BITS Italian Bioinformatics Society, Annual meeting , Bologna, IT, 28-29 April 2006, talk title
“Quantifying the relevance of different mediators in the human immune cell network”.
FGA 2006 Functional Genomics of Aging , Palermo, IT, 29 March-2 April 2006, poster “Modeling and quantification of mediator relevance in immune cell network”.
Biocomplexity , a paradigm useful for other disciplines? International Italo-Canadian workshop,
Bologna, IT, 13-15 July 2005, talk title “Cytokine network modeling”.
SMB2005 Intelligent Systems for Molecular Biology , ISCB conference, Detroit, USA, 25-29 June 2005, poster “Quantifying the relevance of different mediators in the human immune cell network”.
OTHER PROFESSIONAL ACTIVITIES
Frontiers in Cell and Developmental Biology: Systems Biology; BMC Systems Biology; Systems Medicine
Editor, Review Editor
RAI Radio3, Italian National Radio & Television Broadcasting Company
Author of Politics of Science & Research radiodocumentary programs
Il Domani di Bologna, daily newspaper, Bologna, Italy, 2003
Popular science writer
M.A.D. Environmental Dynamic Monitoring , Bologna , Italy, 2003
Winner of an Emilia Romagna Region-funded 1-yr bursary for a spin-off company study
OTHER INTERESTS
photography, amateur olive oil and wine maker, running, thai boxing, scuba diving, motorbiking, biking, professional cinema projectionist.