Computer Laboratory


(Photos on Cambridge exam "lifestyle")

Pietro Lio'

I am a Reader in Computational Biology in the Computer Laboratory which is the department of Computer Science of the University of Cambridge and I am a member of the Artificial Intelligence group of the Computer Laboratory.
I have a MA from Cambridge, a PhD in Complex Systems and Non Linear Dynamics (School of Informatics, dept of Engineering of the University of Firenze, Italy) and a PhD in (Theoretical) Genetics (University of Pavia, Italy).
Affliations: I am affiliated to Cambridge Computational Biology Institute. I am member of Cambridge Neuroscience, Cambridge Centre for Science and Policy, Health, Medicine & Society, POEMS (Predictive mOdelling for hEalthcare technology through MathS), ACM (Association for Computing Machinery), VPH (Virtual Physiologycal Human) and SMB (society for mathematical biology). I am Educational Affiliate Employee Member of the BCS, The Chartered Institute for IT. 
Admin duties: Researcher Development Coordinator  (from 1st october 2016), Reviewer in University complaint and review procedure, Steering committee member of Cambridge Big Data.

Office: FC20; tel: +44 (0)1223-763604; E_mail: Pietro.Lio at
I am happy to receive enquiries for PhD applications.
I have successfully completed the equality and diversity essentials.
College: Fellow of Clare Hall (from 1 october 2017)
Listed in


Bioinformatics Software tools: Metrade (with Dr Claudio Angione, multi-omic integration), Cytohic (with Y. Shavit; DNA conformation capture), Dapper (with Dr S. Haider; mass spectra),  chromoR (with Y. Shavit; DNA conformation capture), Fishical (with Dr Y. Shavit, Calibration Fish-HiC), LDA (drug repositioning pathways analysis, with N. Pratanwanich), ComoR (with Dr M. Moni; data fusion), CytoCom (with Dr M. Moni; data visualisation); Nuchart (with Dr I. Merelli; data fusion); Pogo (with Dr M. Moni, data fusion), PASSML (with Dr N. Goldman, phylogenetic inference and protein structure). Other: collaboration for Vitadock (EU Mission T2D project).

Recent papers divided in 4 sections: BioMolecular and Clinical Data Integration;  Computational Medicine and Comorbidity machine learning ; Bioengineering and Bioinspired technologies; ICT and Social Innovation

Methods for BioMolecular and Clinical data Integration

Editing a IEEE/ACM Transactions on Computational Biology and Bioinformatics special issue with E. Bartocci (Wien) and N. Paoletti (New York)

Editing a Springer Book on Automated Reasoning in Systems Biology and Medicine with P. Zuliani (Newcastle)

Petar Veličković, Guillem Cucurull, Arantxa Casanova, Adriana Romero, Pietro Liò, Yoshua Bengio Graph Attention Networks. accepted at ICLR 2018

Duo Wang, Mateja Jamnik, Pietro Liò (2018)  Investigating diagrammatic reasoning with deep
neural networks. Accepted at Diagrams 2018

I. Bica, Petar Veličković, Hui Xiao and Pietro Liò (2018) Multi-omics data integration using cross-modal neural networks. Accepted at ESANN

Wang D. et al. (2017) Neural network fusion: a novel CT-MR Aortic Aneurysm image segmentation method. accepted  at SPIE medical imaging conference 2018 

Jin Zhu, Duo Wang Pietro Liò (2017) A Multi-pathway 3D Dilated Convolutional Neural Network for Brain Tumor Segmentation. BRATS challenge

Petar Veličković, Laurynas Karazija, Nicholas D. Lane, Sourav Bhattacharya, Edgar Liberis, Pietro Liò, Angela Chieh, Otmane Bellahsen, Matthieu Vegreville (2017) Cross-modal Recurrent Models for Human Weight Objective Prediction from Multimodal Time-series Data. NIPS ML4H & NIPS TSW

Momchil Peychev, Petar Velickovic, Pietro Liò (2017) Quantifying the Effects of Enforcing Disentanglement on Variational Autoencoders. 2017 NIPS Workshop on Learning Disentangled Representations

Emmanouil I Athanasiadis, Helena Andres, Jan G Botthof, Lauren Ferreira, Pietro Lio, Ana Cvejic (2017). Single-cell RNA-Sequencing uncovers transcriptional states and fate decisions in haematopoiesis. Nature Communications

Peng He , Tadashi Nakano , Yuming Mao, Lio’ Pietro, Qiang Liu, and Kun Yang (2017) Stochastic Channel Switching of Frequency-encoded Signals in Molecular Communication Networks. IEEE COMMUNICATIONS LETTERS

Vijayakumar S., Conway M., Liò P. and Angione C. (2017) Multi-omic genome-scale models: methodologies, hands-on and perspectives. Springer Verlag

F. Tordini et al. (2017) Scientific Workflows on Clouds with Heterogeneous and Preemtible Instances. Proceedings ParCO

Martins DP, Barros MT, Pierobon M, Kandhavelu M, Lio P, Balasubramaniam S. (2017) Computational Models for Trapping Ebola Virus Using Engineered Bacteria. IEEE/ACM Transactions on Computational Biology and Bioinformatics

G M Dimitri et al (2017) A multiplex network approach for the analysis of Intracranial Pressure and Heart Rate data in traumatic brain injured patients. Applied Network Science

Brouwer T. and Liò P. (2017) Bayesian Hybrid Matrix Factorisation for Data Integration. Accepted at AISTATS 2017; PMLR 54:557-566

Vijayakumar S. Conway M., Liò P. and Angione C. (2017) Seeing the wood for the trees: a forest of methods for omic-network integration in metabolic modelling. Briefings in Bioinformatics

Brouwer T. and Liò P. (2017) Comparative Study of Inference Methods for Bayesian Matrix Factorisation. Accepted at ECML-PKDD 2017 (LNCS)

F. Tordini, I. Merelli, P. Liò, L. Milanesi, M. Aldinucci:  NuchaRt: Embedding High-Level Parallel Computing in R for Augmented Hi-C Data Analysis. Computational Intelligence Methods for Bioinformatics and Biostatistics Volume 9874 of the series Lecture Notes in Computer Science pp 259-272

Tordini F., Aldinucci M., Milanesi L., Pietro Liò, Merelli I. The genome conformation as an integrator of multi-omic data: the example of damage spreading in cancer. Frontiers in Genetics.

Veličković P., Wang, D., Lane N., Lio', P.  (2016)  X-CNN: Cross-modal Convolutional Neural Networks for Sparse Datasets. IEEE SSCI 2016 (

Tordini F., Drocco M., Misale C., Milanesi L., Lio` P., Merelli I., Torquati, M and Aldinucci M., NuChart-II: The road to a fast and scalable tool for Hi-C data analysis. The International Journal of High Performance Computing Applications 1–16, 2016.

Brouwer T., Frellsen J. and Liò P. (2016) Fast Bayesian Non-Negative Matrix Factorisation and Tri-Factorisation. NIPS Workshop on Advances in Approximate Bayesian Inference , Barcelona  arXiv:1610.08127
 Pratanwanich N., Liò P. , Stegle O. (2016). Warped Matrix Factorisation for Multi-View Data Integration. Accepted at ECMLPKDD2016.

Angione C, Conway M. and Pietro Lio' (2016) Multiplex methods provide effective integration of multi-omic data in genome-scale models. BMC Bioinformatics. 17 Suppl 4:83. doi: 10.1186/s12859-016-0912-1.

Smedley et al. (2015) The BioMart Community Portal: an innovative alternative to large, centralized data repositories. Nucleic Acids Research, Apr 20. pii: gkv350.

Shavit, Y., Merelli I, Milanesi L. & Lio', P. (2015)  How computer science can help in understanding the 3D genome architecture. Briefings in Bioinformatics. pii: bbv085

Shavit Y., Walker B., Lio' P (2015) Hierarchical block matrices as efficient representations of chromosome topologies and their application for 3C data integration. Bioinformatics 2015 Dec 17. pii: btv736.

Bardozzo F, Lio P and Tagliaferri R, (2015) Multi omic oscillations in bacterial pathways. IJCNN2015, Dublin.

Hamey F., Shavit Y., Maciulyte V., Town C., Lio' P. and Tosi S. (2015) Automated Detection of Fluorescent Probes in Molecular Imaging. Lecture Notes in Computer Science LNCS 8623

I Merelli, F Tordini, M Drocco, M Aldinucci,  P Liò, L Milanesi (2015) Integrating Multi-omics features exploiting Chromosome Conformation Capture data. Frontiers in genetics Feb 11;6:40. doi: 10.3389/fgene.2015.00040. eCollection 2015.

M Fondi, P Liò (2015) Multi -omics and metabolic modelling pipelines: challenges and tools for systems microbiology. Microbiological Research Feb;171:52-64. doi: 10.1016/j.micres.2015.01.003. Epub 2015 Jan 7.

Shavit, Y., Hamey F. & Lio', P. (2014) FisHical: an R package for iterative FISH-based calibration of Hi-C data. Bioinformatics Jul 23. pii: btu491.

Shavit, Y., & Lio', P. (2014). Combining wavelet changepoint and Bayes Factor for analysing chromosomal interactions data. Molecular BioSystems 10(6):1576-85.

Taffi M., Paoletti N., Liò P., Pucciarelli S., Marini M. (2015) Bioaccumulation modelling and sensitivity analysis for discovering key players in contaminated food webs: the case study of PCBs in the Adriatic Sea.  Ecological Modelling 306:205-215 04 Jun 2015       doi:10.1016/j.ecolmodel.2014.11.030 (Best Young Researcher Award at ISEM 2016).

Taffi, M., Paoletti, N. , Angione, C., Pucciarelli, S., Marini, M., Liò, P. (2014) Bioremediation in marine ecosystems: a computational study combining ecological modelling and flux balance analysis. Frontiers in Genetics, section Systems Biology.  5: 319.Published online Sep 12, 2014. doi:  10.3389/fgene.2014.00319 (see also related editorial).

F. Tordini, M. Drocco, C. Misale, L. Milanesi, P. Liò, I. Merelli, and M. Aldinucci, Parallel Exploration of the Nuclear Chromosome Conformation with NuChart-II, in Proc. of Intl. Euromicro PDP 2015: Parallel Distributed and network-based Processing, Turku, Finland, 2015.

F. Tordini, M. Drocco, C. Misale, P. Liò, I. Merelli, M. Aldinucci: NuChart-II: the road to a fast and scalable tool for Hi-C data analysis, in International Journal of High Performance Computing Application, 2015.

F. Tordini, I. Merelli, P. Liò, M. Aldinucci and L. Milanesi: NuchaRt: embedding High-Performance Computing in R for augmented DNA Exploration, in Proc. of the 12th Intl. meeting on Computational Intelligence methods for Bionformatics and Biostatistics (CIBB), Naples, Italy, 2015.

M. Drocco, C. Misale, G. P. Pezzi, F. Tordini, and M. Aldinucci (2015) Memory- Optimised Parallel Processing of Hi-C Data, in Proc. of Intl. Euromicro PDP 2015: Parallel Distributed and network-based Processing, Turku, Finland, 2015

I Merelli, Fabio Tordini, Maurizio Drocco, Marco Aldinucci, Pietro Liò, and Luciano Milanesi. Integrating multi-omic features exploiting chromosome conformation capture data. Frontiers in Genetics, 6(40), 2015

Fabio Tordini, Maurizio Drocco, Claudia Misale, Luciano Milanesi, Pietro Liò, Ivan Merelli, and Marco Aldinucci. Parallel exploration of the nuclear chromosome conformation with NuChart-II. In Proc. of Intl. Euromicro PDP 2015: Parallel Distributed and network-based Processing. IEEE, March 2015.

I. Merelli, P. Liò, L. Milanesi (2014). Describing the genes social networks relying on chromosome conformation capture data. EMBnet.journal, 19:73-75, oct. 2013. ISSN 2226-6089.

Bartoszek, K & Lio', P. (2014)  A Novel algorithm to reconstruct phylogenies using gene frequencies and expression data.  Proceedings of 2014 International Conference on Bioinformatics and Biomedical Technology. Gdansk 14-16 May, 2014.

F.  Tordini, M. Drocco, I. Merelli, P. Li` o, L. Milanesi, and M. Aldinucci: “NuChart-II: a graph-based approach for the analysis and interpretation of Hi-C Data,” in Proc. of the 11th Intl. meeting on Computational Intelligence methods for Bionformatics and Biostatistics (CIBB), Cambridge, UK, 2014

Merelli I, Liò P, Milanesi L (2013) NuChart: An R Package to Study Gene Spatial Neighbourhoods with Multi-Omics Annotations. PLoS ONE 8(9): e75146. doi:10.1371/journal.pone.0075146

Shavit, Y., & Lio', P. (2013). CytoHiC: a cytoscape plugin for visual comparison of Hi-C networks. Bioinformatics, 29(9), 1206-1207. doi:10.1093/bioinformatics/btt120

Liò, P., Angelini, C., De Feis, I., & Nguyen, V. A. (2012). Statistical approaches to use a model organism for regulatory sequences annotation of newly sequenced species.. PLoS One, 7(9), e42489. doi:10.1371/journal.pone.0042489

Methods in Computational Medicine, Complex Disease dynamics (Comorbidity) 

G M Dimitri; S Agrawal; Adam Young; J Donnelly; P Smielewski, P. Hutchinsons, M. Czosnyka, P Lio' C. Haubrich (2017) A multiplex network approach for the analysis of Intracranial Pressure and Heart Rate data in traumatic brain injured patients. Applied Network Science (in press)

M Barandalla, H Shi, H Xiao, S Colleoni, C Galli, P Lio, M. Trotter and G Lazzari (2017) Global gene expression profiling and senescence biomarker analysis of hESC exposed to H2O2 induced non-cytotoxic oxidative stress Stem Cell Research & Therapy 20178:160, DOI: 10.1186/s13287-017-0602-6

Moni M and Liò P. (2017) Genetic Profiling and Comorbidities of Zika Infection. Journal of Infectuous diseases (in Press).

Oshota et al. (2017) Transcriptome and Proteome Analysis of Salmonella enterica Serovar Typhimurium Systemic Infection of Wild Type and Immune-deficient Mice. Accepted in Plos One.

Heffernan K. , Liò P. and Teufel S. (2017) Multilayer Data and Document Stratification for Comorbidity Analysis (2017) Thirteenth International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics. LNBI

Dimitri MG and and Liò P. (2017) DrugClust: a machine learning approach for drugs side effects prediction. Computational Biology and Chemistry (10.1016/j.compbiolchem.2017.03.008).

S Saheb Kashaf,  C. Angione, P. Liò (2017) Making life difficult for Clostridium difficile: augmenting the pathogen's metabolic model with transcriptomic and codon usage data for better therapeutic target characterization. BMC Systems Biology.

P Narula, V Piratla, A Bansal, S Azad, P Liò.  Parameter estimation of tuberculosis transmission model using Ensemble Kalman filter across Indian states and union territories.  Infection, Disease & Health, 2016

Dimitri G , .., Lio', P.  (2016) A multilayer network approach for the analysis of Intracranial Pressure and Heart Rate data in traumatic brain injuries patients.

Dimitri MG. et al., Computational challenges for the analysis of Intracranial Pressure and Heart Rate data in traumatic brain injuries patients. in press in Frontiers, (neuroinformatic workshop in Reading).

Iuliano A., Occhipinti A, Angelini C., De Feis I., Liò P. (2016). Cancer markers selection using network-based Cox Regression: a methodological and computational practice.  in press on Frontiers in Physiology, section Computational Physiology and Medicine(Article type: Methods).

Angione C., Lio', P. , Pucciarelli S.  (2016) Bioinformatics challenges and potentialities in studying extreme environments. LNBI 9874 post proceedings CIBB2015

Veličković P. Lio', P.  (2016)  Muxstep: an open-source C++ multiplex HMM library for making inferences on multiple data types, Bioinformatics. 2016 Apr 13. pii: btw196.

Sansom C., Castiglione F., Liò, P. (2016) Metabolic disorders: how can systems modelling help?. Lancet Endocrinology pii: S2213-8587(16)00047-4. doi: 10.1016/S2213-8587(16)00047-4.

Schwarz, E et al.,  (2016) Protein interaction networks link schizophrenia risk loci to synaptic function. Schizophrenia Bulletin, 2016 Apr 7. pii: sbw035..

Nardi F., Liò, P., Frati F. (2016) Animal inference on human mitochondrial diseases. Computational Biology and Chemistry, Comput Biol Chem. 2016 Feb 16;62:17-28. doi: 10.1016/j.compbiolchem.2016.02.002.

Bartocci E, Lio', P. (2016) Computational modeling, formal analysis and tools for systems biology. Plos Computational Biology. 12(1): e1004591. doi:10.1371/journal.pcbi.1004591.

Capobianco E. and Liò, P. (2015) Electronic Health Systems: Golden Mine for Precision Medicine? The Journal of Precision Medicine (in press)

Claudio Angione and Pietro Lio' (2015) Predictive analytics of environmental adaptability in multi-omic network models. Scientific Reports Oct 20;5:15147. doi: 10.1038/srep15147.

S. Haider, Z. Lipinszki, M. R Przewloka, Y. Ladak, P.P. D'Avino, Y. Kimata, P. Lio' and D. M. Glover (2015) DAPPER: A data-mining resource for protein-protein interactions. BioData Mining 2015, 8:30.

Veličković P. Lio', P.  (2015)  Molecular multiplex network inference using Gaussian mixture hidden Markov models. Journal of Complex Networks 2015; doi: 10.1093/comnet/cnv029

Moni, MA, Haoming Xu, Liò, P (2015).  Network regularised Cox regression and multiplex network models to predict disease comorbidities and survival of cancer. Computational Biology and Chemistry (in press).

Conway, M, Angione, C., Lio’ P. (2015) Iterative multi level calibration of metabolic networks. Current Bioinformatics. .

M Fondi, P Liò (2015) Genome-Scale Metabolic Network Reconstruction, Bacterial Pangenomics, Methods in Molecular Biology Volume 1231, 233-256

Angione C, Costanza J. , Carapezza G., Lio' P, Nicosia G. (2015)  Multi-target analysis and design of mitochondrial metabolism. PLoS ONE 10(9): e0133825. doi:10.1371/journal.pone.0133825

Castellani et al, Lio’ P. (2015)  Systems medicine of inflammaging. Briefings in Bioinformatics, Aug 24. pii: bbv062.

Ascolani G., Occhipinti A., Lio’ P. (2015) Modelling circulating tumour cells for personalised survival prediction in metastatic breast cancer. Plos Computational Biology May 15;11(5):e1004199. doi: 10.1371/journal.pcbi.1004199. eCollection 2015.

Angione C, Pratanwanich N., Lio’ P. (2015) A hybrid of metabolic flux analysis and Bayesian factor modeling for multi-omics temporal pathway activation. ACS Synthetic Biology, 10.1021/sb5003407

Bosi, et al.  MeDuSa: a multi-draft based scaffolder. (2015) Bioinformatics. 2015 Mar 25. pii: btv171 (pubmed/25810435).

Iuliano A., Occhipinti A, Angelini C., De Feis I. and Lio’ P. (2015) Network-based survival analysis methods for pathway detection in cancer. Lecture Notes in Computer Science LNCS 8623 (in press).

Boutorh A, Pratanwanich N, Guessoum A. and Lio’ P. (2015) Drug repurposing by optimizing mining of genes target association. Lecture Notes in Computer Science LNCS 8623 (in press).

Capobianco E. and Liò, P. (2015).  Comorbidity Networks: beyond disease correlations. The Journal of Complex Networks ,  jcomplexnetw (2015) doi: 10.1093/comnet/cnu048

Moni MA, Liò P (2015). How to build personalised multi-omics comorbidity profiles. Frontiers in Cell and Developmental Biology, section Systems Biology. Front. Cell Dev. Biol. doi: 10.3389/fcell.2015.00028.

Moni, MA, Haoming Xu, Liò, P (2014). CytoCom: a Cytoscape app to visualise, query and analyse disease comorbidity networks. Bioinformatics 31:969-71.

Capobianco E. and Liò, P. (2014).  Advances in translational biomedicine from systems approaches. Frontiers in Genetics, 14 August 2014 doi: 10.3389/fgene.2014.00273 (Editorial)

Korhonen A., Guo Y, Yetisgen-Yildiz M., Stenius U., Narita M. and Lio’ P. (2015) Improving Literature-Based Discovery with Text Mining Lecture Notes in Computer Science LNCS 8623

Pratanwanich, N. and Liò, P. (2014) Exploring the complexity of pathway-drug relationships using latent Dirichlet allocation. Computational Biology and Chemistry. 53:144-52. doi: 10.1016/j.compbiolchem.2014.08.019

Pratanwanich, N. and Liò, P. (2014) Who Wrote This? Textual Modeling with Authorship Attribution in Big Data. ICDM 2nd Workshop for High Dimensional Data Mining.

Moni, M.A. and Lio`, P. (2014) Network-based analysis of comorbidities risk during an infection: SARS and HIV case studies. BMC Bioinformatics 2014, 15:333

Felicetti, L., Femminella, M., Reali, G., Lio', P.  (2014) Effect of Aging, Disease vs Health Conditions in the design of Nano-Communications in Blood Vessels Springer book on Modeling, Methodologies and Tools for Molecular and Nano-scale Communications.

Azad S, Lio P. (2014) Emerging trends of malaria-dengue geographical coupling in the Southeast Asia region. J Vector Borne Dis. 51(3):165-71.

Moni M.A. and Liò, P. (2014). ComoR: a software for disease comorbidity risk assessment. Journal of Clinical Bioinformatics 2014, 4:8  doi:10.1186/2043-9113-4-8.

Pratanwanich, N. and Liò, P. (2014) Pathway-based Bayesian inference of drug-disease interactions. Molecular BioSystems Jun;10(6):1538-48. doi: 10.1039/c4mb00014e.

Ascolani, G. and Liò, P. (2014) Modeling TGF-beta in early stages of cancer tissue dynamics. Plos One 9(2):e88533

Capobianco E. and Liò, P. (2013), Comorbidity: a multidimensional approach. Trends in Molecular Medicine  Sep;19(9):515-21

Vicenzi, E., Liò, P., & Poli, G. (2013). The puzzling role of CXCR4 in human immunodeficiency virus infection. Theranostics, 3(1), 18-25. doi:10.7150/thno.5392

Bartocci, E., Liò, P., Merelli, E., & Paoletti, N. (2012). Multiple Verification in Complex Biological Systems: The Bone Remodelling Case Study. T. Comp. Sys. Biology, 14, 53-76. doi:10.1007/978-3-642-35524-0_3

Liò, P., Merelli, E., & Paoletti, N. (2012). Disease processes as hybrid dynamical systems. EPTCS 92, 2012, pp. 152-166. doi:10.4204/EPTCS.92.11

Liò, P., Paoletti, N., Moni, M. A., Atwell, K., Merelli, E., & Viceconti, M. (2012). Modelling osteomyelitis.. BMC Bioinformatics, 13 Suppl 14, S12. doi:10.1186/1471-2105-13-S14-S12

Paoletti, N., Liò, P., Merelli, E., & Viceconti, M. (2012). Multilevel computational modeling and quantitative analysis of bone remodeling. IEEE/ACM Trans Comput Biol Bioinform, 9(5), 1366-1378. doi:10.1109/TCBB.2012.51

Methods in in Bio Engineering and Bioinspired engineering 

Felicetti L, et al. Lio' P. (2017) A big-data layered architecture for analyzing molecular communications systems in blood vessels. Accepted at ACM NanoCom 2017

Peng He, Yuming Mao, Qiang Liu, Pietro Liò, Kun Yang, Channel modelling of molecular communications across blood vessels and nerves. ICC 2016: 1-6

Alarcon E. et al, MolComML: The Molecular Communication Markup Language. Accepted at ACM NanoCom 2016.

Reali G. et al. Liò P., (2016) Simulation Tools for Molecular Communications. IEEE TCSIM Newsletter

Felicetti, L., Femminella, M., Reali, G., Lio', P.  (2015)  Applications of molecular communications to medicine: a survey. Nano Communication Networks.

Felicetti, L., Femminella, M., Reali, G., Lio', P.  Endovascular Mobile Sensor Network for Detecting Circulating Tumoral Cells.  9th International Conference on Body Area Networks. BODYNETS - 9th International Conference on Body Area Networks, September 29–October 1, 2014, London,

L. Felicetti, M. Femminella, G. Reali, P. Lio', A Molecular Communication System in Blood Vessels for Tumor Detection, ACM NANOCOM 2014, Atlanta, Georgia, USA, May 13-14, 2014 - DOI: 10.1145/2619955.2619978

L. Felicetti, M. Femminella, G. Reali, P. Lio', (2014) Effect of Aging, Disease vs Health Conditions in the design of Nano-Communications in Blood Vessels, published in the Springer book "Modeling, Methodologies and Tools for Molecular and Nano-scale Communications", Springer nanocom 2014

Angione C, Costanza J. , Carapezza G., Lio' P, Nicosia G. (2015) Analysis and Design of Molecular Machines, Theoretical Computer Science .

Angione C., Bartocci E., Bortolussi L., Lió P., Occhipinti A., Sanguinetti G.,  (2014) Bayesian Design for Whole Cell Synthetic Biology Models. Proceedings HSB. Third International Workshop on Hybrid Systems Biology Vienna, Austria, July 23-24, 2014 at CAV 2014.

Vitaly Petrov, Sasitharan Balasubramaniam, Rahmi Lale, Dmitri Moltchanov, Pietro Lio’, Yevgeni Koucheryavy (2014)  Forward and Reverse Coding for Chromosome Transfer in Bacterial Nanonetworks. Nano Communication Networks 5:  1-2.  March-April.

Angione, C., Pratanwanich, N. and Pietro Lió, P.  A hybrid of multi-omics FBA and Bayesian factor modeling to identify pathway crosstalks.  Proceedings IWBDA 2014.

C. Angione, G. Carapezza, J. Costanza, P. Lió, and G. Nicosia, Pareto Optimality in Organelle Energy Metabolism Analysis, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2013

G. Carapezza, R. Umeton, J. Costanza, C. Angione, G. Stracquadanio, A. Papini, P. Lió, G. Nicosia, Efficient Behavior of Photosynthetic Organelles via Pareto Optimality, Identifiability and Sensitivity Analysis, ACS Synthetic Biology Journal, 2(5), 274-288, 2013

Brilli, M., Liò, P., Lacroix, V., & Sagot, M. F. (2013). Short and long-term genome stability analysis of prokaryotic genomes.. BMC Genomics, 14, 309. doi:10.1186/1471-2164-14-309

C. Angione, G. Carapezza , J. Costanza, P. Lió, and G. Nicosia, Computing with Metabolic Machines, in Proceedings of Turing100: The Alan Turing Centenary Conference. University of Manchester, UK. June 22-26, 2012, pp. 1-15. Best paper award presented by Sir Roger Penrose

Balasubramaniam, S., & Lio', P. (2013). Multi-hop conjugation based bacteria nanonetworks. IEEE Trans Nanobioscience, 12(1), 47-59. doi:10.1109/TNB.2013.2239657.  Ranked 5th among most popular articles in IEEE Transactions on Nanobioscience. Listed here among IEEECOM Best readings

J. Costanza, G. Carapezza, C. Angione, P. Lió, and G. Nicosia, (2012)  Robust Design of Microbial Strains, Bioinformatics 28, 3097-3104.

ICT and Social Innovation technologies

Scatà M., Di Stefano A., La Corte A., Liò P. The Impact of Heterogeneity and Awareness in Modeling Epidemic Spreading on Multiplex Networks, accepted on Scientific Reports

Bianchi L, Liò P. (2016) Opportunities for community awareness platforms in personal genomics and bioinformatics education. Briefings in Bioinformatics.

Scatà M., Di Stefano A., La Corte A., Liò P. , Catania E. , Guardo E. , Pagano S. (2016) Combining evolutionary game theory and network theory to analyze human cooperation patterns. Chaos, Solitons & Fractals. 91, 17–24, October 2016.

X. Lu. Pan Hui (2016) A Cross-network Mobile Peer to Peer Content Dissemination Model to Offload Cellular Network Traffic. In press on Sensors

Lu, X , Liò P. and Lió, P. (2015) Privacy Information Security Classification and Comparison between the Westerner and Chinese 2015 International Conference on Identification, Information, and Knowledge in the Internet of Things

Di Stefano, A.,  Scata' M. , Lió, P. et al. (2015) Quantifying the Role of Homophily in Human Cooperation Using Multiplex Evolutionary Game Theory. PLoS One. 2015 Oct 23;10(10):e0140646. doi: 10.1371/journal.pone.0140646.

Alessandro Di Stefano, Aurelio La Corte, Pietro Lió , Marialisa Scatá (2015) Bio-Inspired ICT for Big Data Management in Healthcare. in Intelligent Agents in Data-intensive Computing, editors: Kołodziej, J., Correia, L., Manuel Molina, J. Springer.

Xiaofeng Lu , Pietro Lio , and Pan Hui (2014) A Content Dissemination Model for Mobile Internet to Minimize Load. Proceedings of the 4TH Internationa Conference on Electronics, Communications and Networks, 12 – 15 December 2014, Beijing, China Edited by Amir Hussain and Mirjana Ivanovic CRC Press 2015, Pages 289–294. Print ISBN: 978-1-138-02830-2

 Bianchi, L., Fernandes, P., Lió, P. Improving Collective Awareness and Education about the Privacy and Ethical Issues Connected with the Genome Technologies. Proceedings of the International Conference on The Future of Education. Florence, Italy 13 - 14 June 2013

H. Kim, W. M. Khoo and Pietro Lio' (2012) Polymorphic Attacks against Sequence-based Software Birthmarks, SSP: The 2nd ACM SIGPLAN Workshop on Software Security and Protection, held in conjunction with ACM PLDI, Beijing, China, 2012


Editorial & Departmental Administration
Interesting Conferences
Valigie (personal)