All Stories

  1. From infection to immunity: understanding the response to SARS-CoV2 through in-silico modeling

    Article • December 2020, Cold Spring Harbor Laboratory Press

    Filippo Castiglione

  2. Potential predictors of type-2 diabetes risk: machine learning, synthetic data and wearable health devices

    Article • BMC Bioinformatics, December 2020, Springer Science + Business Media

    Filippo Castiglione

  3. Deep learning in systems medicine

    Article • Briefings in Bioinformatics, November 2020, Oxford University Press (OUP)

    Filippo Castiglione, Steven Watterson

  4. A Candidate Multi-Epitope Vaccine Against Pathogenic Chandipura Vesiculovirus Identified using Immunoinformatics.

    Article • August 2020, Springer Science + Business Media

    Filippo Castiglione

  5. A candidate multi-epitope vaccine against SARS-CoV-2

    Article • Scientific Reports, July 2020, Springer Science + Business Media

    Filippo Castiglione

  6. Optimizing the Dynamic Behavior of Wells and Facilities with Machine Learning and Agent Negotiation Techniques

    Article • January 2020, EAGE Publications

    Filippo Castiglione

  7. Game of neutrophils: modeling the balance between apoptosis and necrosis

    Article • BMC Bioinformatics, December 2019, Springer Science + Business Media

    Filippo Castiglione

  8. Critical nodes reveal peculiar features of human essential genes and protein interactome

    Article • November 2019, Cold Spring Harbor Laboratory Press

    Filippo Castiglione

  9. Critical nodes reveal peculiar features of human essential genes and protein interactome

    Article • November 2019, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  10. Potential predictors of type-2 diabetes risk: machine learning, synthetic data and wearable health devices

    Article • November 2019, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  11. Computer Modeling of Clonal Dominance: Memory-Anti-Naïve and Its Curbing by Attrition

    Article • Frontiers in Immunology, July 2019, Frontiers

    Filippo Castiglione

  12. Modeling the Effect of High Calorie Diet on the Interplay between Adipose Tissue, Inflammation, and Diabetes

    Article • Computational and Mathematical Methods in Medicine, February 2019, Hindawi Publishing Corporation

    Filippo Castiglione

  13. A mathematical model of Chagas disease infection predicts inhibition of the immune system

    Article • December 2018, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  14. A mathematical model of murine macrophage infected with Leishmania sp

    Article • December 2018, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  15. Evolutionary Game Theory Can Explain the Choice Between Apoptotic and Necrotic Pathways in Neutrophils

    Article • December 2018, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  16. Gene Regulatory Network Modeling of Macrophage Differentiation Corroborates the Continuum Hypothesis of Polarization States

    Article • Frontiers in Physiology, November 2018, Frontiers

    Filippo Castiglione

  17. Personalizing physical exercise in a computational model of fuel homeostasis

    Article • PLoS Computational Biology, April 2018, PLOS

    Filippo Castiglione

  18. Computing Hierarchical Transition Graphs of Asynchronous Genetic Regulatory Networks

    Article • January 2018, Springer Science + Business Media

    Filippo Castiglione

  19. Community effort endorsing multiscale modelling, multiscale data science and multiscale computing for systems medicine

    Article • Briefings in Bioinformatics, December 2017, Oxford University Press (OUP)

    Filippo Castiglione

  20. In-silico analysis of the “memory anti-Naïve” effect in anti-viral cross-reactive responses

    Article • November 2017, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  21. Modeling Immune Response to Leishmania Species Indicates Adenosine As an Important Inhibitor of Th-Cell Activation

    Article • Frontiers in Cellular and Infection Microbiology, July 2017, Frontiers

    Filippo Castiglione

  22. A system model of the effects of exercise on plasma Interleukin-6 dynamics in healthy individuals: Role of skeletal muscle and adipose tissue

    Article • PLOS One, July 2017, PLOS

    Filippo Castiglione

  23. Human monocyte-derived dendritic cells exposed to hyperthermia show a distinct gene expression profile and selective upregulation of IGFBP6

    Article • Oncotarget, June 2017, Impact Journals, LLC

    Filippo Castiglione

  24. Computational modeling of immune system of the fish for a more effective vaccination in aquaculture

    Article • Bioinformatics, May 2017, Oxford University Press (OUP)

    Filippo Castiglione

  25. The emerging role of ECM crosslinking in T cell mobility as a hallmark of immunosenescence in humans

    Article • Ageing Research Reviews, May 2017, Elsevier

    Filippo Castiglione

  26. Statistical ensemble of gene regulatory networks of macrophage differentiation

    Article • BMC Bioinformatics, December 2016, Springer Science + Business Media

    Filippo Castiglione

  27. Ultrasensitive HCV RNA Quantification in Antiviral Triple Therapy: New Insight on Viral Clearance Dynamics and Treatment Outcome Predictors

    Article • PLOS One, August 2016, PLOS

    Filippo Castiglione

  28. Metabolic disorders: how can systems modelling help?

    Article • The Lancet Diabetes & Endocrinology, April 2016, Elsevier

    Filippo Castiglione

  29. Characterisation of the Idiotypic Immune Network Through Persistent Entropy

    Article • January 2016, Springer Science + Business Media

    Filippo Castiglione

  30. The clinical significance of HCV core antigen detection during Telaprevir/Peg-Interferon/Ribavirin therapy in patients with HCV 1 genotype infection

    Article • Journal of Clinical Virology, August 2015, Elsevier

    Dr Maria Rosaria Capobianchi, Filippo Castiglione

  31. The hierarchical organization of natural protein interaction networks confers self-organization properties on pseudocells

    Article • BMC Systems Biology, June 2015, Springer Science + Business Media

    Filippo Castiglione

  32. Multiscale modelling in immunology: a review

    Article • Briefings in Bioinformatics, March 2015, Oxford University Press (OUP)

    Filippo Castiglione

  33. Integrated Network Analysis Identifies Fight-Club Nodes as a Class of Hubs Encompassing Key Putative Switch Genes That Induce Major Transcriptome Reprogramming during Grapevine Development  

    Article • The Plant Cell, December 2014, Oxford University Press (OUP)

    Filippo Castiglione

  34. A Mathematical Model of Skeletal Muscle Disease and Immune Response in themdxMouse

    Article • BioMed Research International, January 2014, Wiley

    Filippo Castiglione

  35. Computational and Bioinformatics Techniques for Immunology

    Article • BioMed Research International, January 2014, Wiley

    Filippo Castiglione

  36. Modeling Biology Spanning Different Scales: An Open Challenge

    Article • BioMed Research International, January 2014, Wiley

    Filippo Castiglione

  37. The Onset of Type 2 Diabetes: Proposal for a Multi-Scale Model

    Article • JMIR Research Protocols, October 2013, JMIR Publications Inc.

    Filippo Castiglione

  38. VaccImm: simulating peptide vaccination in cancer therapy

    Article • BMC Bioinformatics, April 2013, Springer Science + Business Media

    Filippo Castiglione

  39. Identifying Correlations between Chromosomal Proximity of Genes and Distance of Their Products in Protein-Protein Interaction Networks of Yeast

    Article • PLOS One, March 2013, PLOS

    Filippo Castiglione

  40. Physio-Environmental Sensing and Live Modeling

    Article • Interactive Journal of Medical Research, January 2013, JMIR Publications Inc.

    Professor Andrea Gaggioli, Filippo Castiglione

  41. Characterizing Protein Shape by a Volume Distribution Asymmetry Index

    Article • The Open Bioinformatics Journal, May 2012, Bentham Science Publishers

    Filippo Castiglione

  42. HIV Reservoirs and Immune Surveillance Evasion Cause the Failure of Structured Treatment Interruptions: A Computational Study

    Article • PLOS One, April 2012, PLOS

    Filippo Castiglione

  43. A Modeling Framework For Immune-related Diseases

    Article • Mathematical Modelling of Natural Phenomena, January 2012, EDP Sciences

    Filippo Castiglione

  44. Computational Models as Novel Tools for Cancer Vaccines

    Article • January 2012, Springer Science + Business Media

    Filippo Castiglione

  45. How the Interval between Prime and Boost Injection Affects the Immune Response in a Computational Model of the Immune System

    Article • Computational and Mathematical Methods in Medicine, January 2012, Wiley

    Filippo Castiglione

  46. Mathematical and Computational Models in Tumor Immunology

    Article • Mathematical Modelling of Natural Phenomena, January 2012, EDP Sciences

    Filippo Castiglione

  47. Time-Course Analysis of Main Markers of Primary Infection in Cats with the Feline Immunodeficiency Virus

    Article • Computational and Mathematical Methods in Medicine, January 2012, Hindawi Publishing Corporation

    Filippo Castiglione

  48. Development of Immune-Specific Interaction Potentials and Their Application in the Multi-Agent-System VaccImm

    Article • PLOS One, August 2011, PLOS

    Filippo Castiglione

  49. Immune system simulation online

    Article • Bioinformatics, June 2011, Oxford University Press (OUP)

    Filippo Castiglione

  50. Immunological network signatures of cancer progression and survival

    Article • BMC Medical Genomics, March 2011, Springer Science + Business Media

    Filippo Castiglione

  51. Timely HAART initiation may pave the way for a better viral control

    Article • BMC Infectious Diseases, March 2011, Springer Science + Business Media

    Filippo Castiglione

  52. CTLs' repertoire shaping in the thymus: A Monte Carlo simulation

    Article • Autoimmunity, January 2011, Taylor & Francis

    Filippo Castiglione

  53. Epitope Screening and Cell Cooperation in the Immune Response

    Article • January 2011, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  54. Criticality of Timing for Anti-HIV Therapy Initiation

    Article • PLOS One, December 2010, PLOS

    Filippo Castiglione

  55. Combining Network Modeling and Gene Expression Microarray Analysis to Explore the Dynamics of Th1 and Th2 Cell Regulation

    Article • PLoS Computational Biology, December 2010, PLOS

    Filippo Castiglione

  56. ImmunoGrid: towards agent-based simulations of the human immune system at a natural scale

    Article • Philosophical Transactions of the Royal Society A Mathematical Physical and Engineering Sciences, May 2010, Royal Society Publishing

    Filippo Castiglione

  57. Computational Immunology Meets Bioinformatics: The Use of Prediction Tools for Molecular Binding in the Simulation of the Immune System

    Article • PLOS One, April 2010, PLOS

    Filippo Castiglione

  58. Vaccine protocols optimization: In silico experiences

    Article • Biotechnology Advances, January 2010, Elsevier

    Filippo Castiglione

  59. Transconjunctival Sutureless 25-Gauge Versus 20-Gauge Standard Vitrectomy: Correlation Between Corneal Topography and Ultrasound Biomicroscopy Measurements of Sclerotomy Sites

    Article • Cornea, January 2010, Wolters Kluwer Health

    Filippo Castiglione

  60. Modeling lymphocyte homing and encounters in lymph nodes

    Article • BMC Bioinformatics, November 2009, Springer Science + Business Media

    Filippo Castiglione

  61. Immune control of HIV-1 infection after therapy interruption: immediate versus deferred antiretroviral therapy

    Article • BMC Infectious Diseases, October 2009, Springer Science + Business Media

    Filippo Castiglione

  62. Stability and phase transitions in a mathematical model of Duchenne muscular dystrophy

    Article • Journal of Theoretical Biology, September 2009, Elsevier

    Filippo Castiglione

  63. A Model of Ischemia-Induced Neuroblast Activation in the Adult Subventricular Zone

    Article • PLOS One, April 2009, PLOS

    Dr Cinzia Volonté, Filippo Castiglione

  64. Toward Multi-organs Simulations of Immune-Pathogen Interactions

    Article • January 2009, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  65. ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization

    Article • Briefings in Bioinformatics, December 2008, Oxford University Press (OUP)

    Filippo Castiglione

  66. A one-mutation mathematical model can explain the age incidence of acute myeloid leukemia with mutated nucleophosmin (NPM1)

    Article • Haematologica, August 2008, Ferrata Storti Foundation (Haematologica)

    Christian Thiede, Filippo Castiglione

  67. Evaluation of HIV-1 and CD4+ T Cell Dynamic Parameters in Patients Treated with Genotypic Resistance Testing-Guided HAART

    Article • Current HIV Research, July 2008, Bentham Science Publishers

    Filippo Castiglione

  68. Plasma HIV RNA Decline and Emergence of Drug Resistance Mutations among Patients with Multiple Virologic Failures Receiving Resistance Testing-Guided HAART

    Article • AIDS Research and Human Retroviruses, June 2008, Mary Ann Liebert Inc

    Dr Maria Rosaria Capobianchi, Filippo Castiglione

  69. Implementation of a regulatory gene network to simulate the TH1/2 differentiation in an agent-based model of hypersensitivity reactions

    Article • Bioinformatics, April 2008, Oxford University Press (OUP)

    Filippo Castiglione

  70. Comments on “Optimization and parallelization strategies for Monte Carlo simulation of HIV infection” by D. Hecquet, H.J. Ruskin and M. Crane Computers in Biology and Medicine, vol. 37, 691, 2007

    Article • Computers in Biology and Medicine, February 2008, Elsevier

    Filippo Castiglione

  71. A Discrete/Continuous Model of Anti-HIV Response and Therapy

    Article • January 2008, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  72. Optimization of HAART with genetic algorithms and agent-based models of HIV infection

    Article • Bioinformatics, October 2007, Oxford University Press (OUP)

    Filippo Castiglione

  73. Determination of the optimal therapeutic protocols in cancer immunotherapy

    Article • Mathematical Biosciences, September 2007, Elsevier

    Filippo Castiglione

  74. Cancer immunotherapy, mathematical modeling and optimal control

    Article • Journal of Theoretical Biology, August 2007, Elsevier

    Filippo Castiglione

  75. Simulating Epstein-Barr virus infection with C-ImmSim

    Article • Bioinformatics, March 2007, Oxford University Press (OUP)

    Filippo Castiglione

  76. Microscopic Simulation in Biology and Medicine

    Article • Current Medicinal Chemistry, March 2007, Bentham Science Publishers

    Professor sauro fausto succi, Filippo Castiglione

  77. ProtNet: a tool for stochastic simulations of protein interaction networks dynamics

    Article • BMC Bioinformatics, March 2007, Springer Science + Business Media

    Filippo Castiglione

  78. An enhanced agent based model of the immune system response

    Article • Cellular Immunology, December 2006, Elsevier

    Filippo Castiglione

  79. Optimal vaccine scheduling in cancer immunotherapy

    Article • Physica A Statistical Mechanics and its Applications, October 2006, Elsevier

    Filippo Castiglione

  80. Optimal Control in a Model of Dendritic Cell Transfection Cancer Immunotherapy

    Article • Bulletin of Mathematical Biology, February 2006, Springer Science + Business Media

    Filippo Castiglione

  81. Computational modeling of the immune response to tumor antigens

    Article • Journal of Theoretical Biology, December 2005, Elsevier

    Filippo Castiglione

  82. HIV-1 STRATEGIES OF IMMUNE EVASION

    Article • International Journal of Modern Physics C, December 2005, World Scientific Pub Co Pte Lt

    Filippo Castiglione

  83. OpenMP parallelization of agent-based models

    Article • Parallel Computing, October 2005, Elsevier

    Filippo Castiglione

  84. Simulating the G-protein cAMP pathway with a two-compartment reactive lattice gas

    Article • Theory in Biosciences, April 2005, Springer Science + Business Media

    Filippo Castiglione

  85. Modeling and simulation of cancer immunoprevention vaccine

    Article • Bioinformatics, April 2005, Oxford University Press (OUP)

    Filippo Castiglione

  86. Article • Immunome Research, January 2005, Springer Science + Business Media

    Filippo Castiglione

  87. The Role of Computational Models of the Immune System in Designing Vaccination Strategies

    Article • Immunopharmacology and Immunotoxicology, January 2005, Taylor & Francis

    Filippo Castiglione

  88. Mutation, Fitness, Viral Diversity, and Predictive Markers of Disease Progression in a Computational Model of HIV Type 1 Infection

    Article • AIDS Research and Human Retroviruses, December 2004, Mary Ann Liebert Inc

    Filippo Castiglione

  89. Keratoconus Staging

    Article • Cornea, October 2004, Wolters Kluwer Health

    Filippo Castiglione

  90. Intracellular signal propagation in a two-dimensional autocatalytic reaction model

    Article • Physical Review E, September 2002, American Physical Society (APS)

    Filippo Castiglione

  91. Selection of escape mutants from immune recognition during HIV infection

    Article • Immunology and Cell Biology, June 2002, Wiley

    Filippo Castiglione

  92. Multi-scaling in the Cont–Bouchaud microscopic stock market model

    Article • Physica A Statistical Mechanics and its Applications, November 2001, Elsevier

    Filippo Castiglione

  93. Design and implementation of an immune system simulator

    Article • Computers in Biology and Medicine, September 2001, Elsevier

    Filippo Castiglione

  94. A DYNAMICAL MODEL OF B–T CELL REGULATION

    Article • International Journal of Modern Physics C, March 2001, World Scientific Pub Co Pte Lt

    Filippo Castiglione

  95. Effect of trading momentum and price resistance on stock market dynamics: a Glauber Monte Carlo simulation

    Article • Physica A Statistical Mechanics and its Applications, January 2001, Elsevier

    Filippo Castiglione

  96. Estimating the keratoconus index from ultrasound images of the human cornea

    Article • IEEE Transactions on Medical Imaging, December 2000, Institute of Electrical & Electronics Engineers (IEEE)

    Filippo Castiglione

  97. Large-scale cellular automata simulations of the immune system response

    Article • Physical Review E, February 2000, American Physical Society (APS)

    Filippo Castiglione

  98. Learning cascade in the immune system dynamics: a numerical simulation

    Article • Computer Physics Communications, September 1999, Elsevier

    Filippo Castiglione

  99. A high performance simulator of the immune response

    Article • Future Generation Computer Systems, April 1999, Elsevier

    Filippo Castiglione