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I have completed my PhD in Physics in 2003 at the University of Manchester, UK, with the age of 25, and was subsequently a post-doctoral researcher at the Universities of Pittsburgh, USA and Lisbon, Portugal. My basic formation is in phase separation dynamics in the context of Soft Condensed Matter Physics. During my PhD I applied analytical and computational techniques to characterise the fluctuations of interfaces during coarsening under shear, and investigated metastable states in Ising-like models that present slow dynamics akin to spin-glasses. Afterwards, in Pittsburgh, I applied the knowledge gathered during my PhD to the study of phase separation in polymeric mixtures. Here, I also focused on studying the mechanics of these heterogeneous mixtures and the organisation of complex hierarchical structures in photo-reactive chemical blends. This work in particular was referred as highlight in the editor's choice section of Science Magazine. However, I wanted to apply my background in Physics and computational modelling to Biology, and I got that opportunity during my postdoctoral studies at Lisbon University. During this stay, I focused on the nucleation dynamics of the native state in protein folding. In particular I studied how the structure and complexity of the native state of proteins determine their folding pathway. This work was featured in the highlights section of Protein Science magazine. In February 2008 I started my appointment at the University of Coimbra (with a Ciência 2007 contract) as an independent researcher. Since that date I have been developing a line of research that takes advantage of my know-how in theoretical and computational Soft Condensed Matter Physics to describe biological systems. I have focused my work in cell movement, tumor growth, blood vessel growth, and tissue irrigation. In these research topics I received the Estímulo à Investigação prize from Fundação Calouste Gulbenkian (given to the best two projects in physics written by young researchers) with the project The Role of Surface Morphology on Tumor Growth. In 2013 I saw my contract upgraded to an FCT Researcher, at the Principal Researcher level, where I came out in the top 7% of the 1150 researchers that applied. In 2018 I became a tenure track Assistant Professor in the Department of Physics of the University of Coimbra. Recently I have developed strong collaborations with experimental and theoretical groups alike to analyse the dynamics of biological systems. From these collaborations resulted high impact collaborative works e.g. the ones published in Redox Biology, Communications Biology, and in Journal of Controlled Release. In 2022 and 2024 my research group was chosen as host for the New Scientific Talents in Physics of Gulbenkian Foundation. In conclusion, my research work has been carried out in Physics, and in particular in using tools of Soft Condensed Matter Physics to describe biological systems. Moreover, I coordinate and participate in interdisciplinary projects, where the tools we develop are tested experimentally in the lab. Importantly I am a main proponent, and the Physics Department coordinator, of the new Master in Computational Biology created in 2020/2021 at the University of Coimbra. I also engage actively in disseminating the results of my research to the general public.
Identification

Personal identification

Full name
Rui Travasso

Citation names

  • Travasso, Rui
  • Rui D.M. Travasso
  • Rui Travasso
  • Rui DM Travasso

Author identifiers

Ciência ID
7618-0D43-230B
ORCID iD
0000-0001-6078-0721

Email addresses

  • rui.travasso@gmail.com (Professional)
  • ruit@uc.pt (Professional)

Addresses

  • Centro de Física da Univerisdade de Coimbra, Departamento de Física, Universidade de Coimbra. Rua Larga, 3004-516, Coimbra, Coimbra, Portugal (Professional)

Websites

Knowledge fields

  • Exact Sciences - Physical Sciences

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese (Mother tongue)
English Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
Spanish; Castilian Proficiency (C2) Proficiency (C2) Advanced (C1) Proficiency (C2) Upper intermediate (B2)
Education
Degree Classification
2003
Concluded
Ph.D. (Doutoramento)
University of Manchester, United Kingdom
"Coarsening in sheared systems and metastability in Ising-like systems with four-spin interaction" (THESIS/DISSERTATION)
N/A
1999
Concluded
Licenciatura (Licenciatura)
Universidade do Porto Faculdade de Ciencias, Portugal
"Study of a system with four-spin interaction through real-space renormalization (4th year project)" (THESIS/DISSERTATION)
18 valores
Affiliation

Science

Category
Host institution
Employer
2013/09/01 - 2018/08/31 Principal Investigator (Research) Universidade de Coimbra, Portugal
2008/02/01 - 2013/01/31 Auxiliary Researcher (Research) Universidade de Coimbra, Portugal

Teaching in Higher Education

Category
Host institution
Employer
2023/01/31 - Current Associate Professor (University Teacher) Universidade de Coimbra, Portugal
2018/11/26 - 2023/01/31 Assistant Professor (University Teacher) Universidade de Coimbra, Portugal
2018/09/01 - 2018/11/26 Invited Assistant Professor (University Teacher) Universidade de Coimbra Departamento de Fisica, Portugal
2013/02/01 - 2013/08/31 Invited Assistant Professor (University Teacher) Universidade de Coimbra, Portugal

Positions / Appointments

Category
Host institution
Employer
2022 - Current Organic Unit Sub-director Universidade de Coimbra Departamento de Fisica, Portugal
2022 - Current International Mobility Coordinator Universidade de Coimbra Departamento de Fisica, Portugal
2022 - Current Member of the Direction Sociedade Portuguesa de Biofísica, Portugal
2019 - Current Director of the National Commission for the Physics Olympiads Sociedade Portuguesa de Física, Portugal
2013 - 2019 President of SPF's Centro's Regional Delegation Sociedade Portuguesa de Física, Portugal
2010 - 2018 Member of the National Commission for the Physics Olympiads Sociedade Portuguesa de Física, Portugal
2013 - 2014 Member of Direction Board Associação Nacional de Investigadores em Ciência e Tecnologia, Portugal

Others

Category
Host institution
Employer
2006/01/01 - 2008/01/31 Post-doc Universidade de Lisboa, Portugal
2003/04/01 - 2005/12/31 Post-Doc University of Pittsburgh, United States
Projects

Grant

Designation Funders
2023 - 2024 Novos Talentos em Física Gulbenkian
Novos Talentos Gulbenkian
Supervisor
2021 - 2024 Fibrinogen-erythrocyte interaction as a new approach on the early detection of thrombotic events in vascular diseases
PTDC/EMD-TLM/7289/2020
Research Fellow
Fundação para a Ciência e a Tecnologia
2018/07/26 - 2022/07/25 Modelação de Angiogénese na Diabetes Mellitus Tipo 2 - integrando abordagens experimentais e teóricas
POCI-01-0145-FEDER-031743
PTDC/BIA-CEL/31743/2017
POCI-01-0145-FEDER-031743
Principal investigator
Universidade de Coimbra Centro de Física, Portugal
Fundação para a Ciência e a Tecnologia
Ongoing
2021 - 2022 Novos Talentos em Física Gulbenkian
Novos Talentos Gulbenkian
Supervisor
Fundacao Calouste Gulbenkian
Ongoing
2021 - 2021 Verão com Ciência
Verão com Ciência
Supervisor
Fundação para a Ciência e a Tecnologia
Concluded
2020/07/01 - 2020/11/01 Escola de Verão de Biologia Computacional
Verao com Ciencia
Supervisor
Fundação para a Ciência e a Tecnologia
Concluded
2011/03/01 - 2014/08/31 Angiogénese na Retinopatia Diabética: Integrando Experiência e Modulação
PTDC/SAU-ENB/110354/2009
Principal investigator
Universidade de Coimbra Centro de Física, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2011/02/01 - 2014/07/31 The nature of the protein folding process
PTDC/FIS/113638/2009
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2010/04 - 2013/09 New methodological advances in Diffusion Spectrum MRI and its implications for structure-function correlations in brain imaging
Researcher
Fundação para a Ciência e a Tecnologia
Concluded
2007 - 2012 Gulbenkian Estímulo Científico: "The role of surface morphology on tumor growth"
Estímulo Científico Gulbenkian
Principal investigator
2007/01 - 2010/04 From protein folding to protein design: Exploring biological complexity via computer simulation of simple models Fundação para a Ciência e a Tecnologia
2007/01 - 2010/04 From protein folding to protein design: Exploring biological complexity via computer simulation of simple models Fundação para a Ciência e a Tecnologia
2005/04 - 2007/11 Complex Systems: from Physics to Biology and the Social Sciences Fundação para a Ciência e a Tecnologia

Contract

Designation Funders
2021 - Current PhD Scholarship for Ana Galvão
UIDP/04564/2020
Supervisor
Fundação para a Ciência e a Tecnologia
2018 - Current PhD Scholarship for Marcos Gouveia
SFRH/BD/136046/2018
Fundação para a Ciência e a Tecnologia
2017 - Current PhD Scholarship for João Simões
SFRH/BD/122607/2016
Supervisor
Fundação para a Ciência e a Tecnologia
Ongoing
2023 - 2028 PhD Scholarship for Matilde Palmeira
Prototera ID-13
Supervisor
2022 - 2026 PhD Scholarship for Tiago Azevedo
ProtoTera ID-12
Supervisor
Fundação para a Ciência e a Tecnologia
2019/12/01 - 2022/11/30 Gestão Inteligente do Fogo
PCIF/SSI/0151/2018
Associação para o Desenvolvimento da Aerodinâmica Industrial, Portugal
Fundação para a Ciência e a Tecnologia
Ongoing
2015 - 2020 PhD scholarship for Maurício Soares
235101/2014-1
Supervisor
Conselho Nacional de Desenvolvimento Científico e Tecnológico
Concluded
2013 - 2018 FCT Principal Researcher
IF/00312/2012
Principal investigator
2011/01/01 - 2013/12/31 Projecto Estratégico - UI 405 - 2011-2012
PEst-C/FIS/UI0405/2011
Universidade do Porto Faculdade de Ciências, Portugal

Universidade da Beira Interior, Portugal

Universidade de Coimbra, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2011/01/01 - 2013/12/31 Projecto Estratégico - UI 261 - 2011-2012
PEst-OE/FIS/UI0261/2011
Universidade de Lisboa Centro de Fisíca e Engenharia de Materiais Avançados, Portugal

Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal

Universidade de Lisboa Instituto Superior Técnico, Portugal

Associação do Instituto Superior Técnico para a Investigação e Desenvolvimento, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2007 - 2007 FCT PostDoc scholarship
SFRH/BPD/27328/2006
Post-doc
2000 - 2003 FCT Ph.D. scholarship
PraxisXXI/BD/21760/99
PhD Student Fellow
1999 - 1999 Erasmus Scholarship
Erasmus
Master Student Fellow

Other

Designation Funders
2023 - 2027 CA-22153 - "European Curvature and Biology Network (EuroCurvoBioNet)"
CA-22153
National Representative in Management Committee
2018/10/18 - 2022/10/17 CA17139 - European Topology Interdisciplinary Action
CA17139
National Representative in Management Committee
European Cooperation in Science and Technology
Ongoing
2016/10/19 - 2020/10/18 CA15214 - An integrative action for multidisciplinary studies on cellular structural networks
CA15214
National Representative in Management Committee
European Cooperation in Science and Technology
Ongoing
Outputs

Publications

Book
  1. Rui DM Travasso; Carlos Portela; Helena Alberto; Lucília Brito; Joaquim Morgado; Rogério Nogueira. Preparação para os Exames Nacionais de Física e Química A 10.º e 11.º anos - Enunciados e resoluções completas 2018 - 2021. EMEC. 2022.
    Published
  2. Rui DM Travasso. Preparação para os Exames Nacionais de Física e Química A 10.º e 11.º anos - Enunciados e resoluções completas 2017 - 2020. Portugal: EMEC. 2021.
    Published
  3. Rui DM Travasso. Preparação para os Exames Nacionais de Física e Química A 10.º e 11.º anos - Enunciados e resoluções completas de 2019. Portugal: EMEC. 2020.
  4. Rui DM Travasso. Preparação para os Exames Nacionais de Física e Química A 10º e 11º anos - Enunciados e resoluções completas de 2013-2018. Portugal: EMEC. 2019.
  5. Rui DM Travasso. Preparação para os Exames Nacionais de Física e Química A 10º e 11º anos - Enunciados e resoluções completas de 2012-2017. Portugal: EMEC. 2018.
  6. Rui DM Travasso. Preparação para os Exames Nacionais de Física e Química A 10º e 11º anos - Enunciados e resoluções completas de 2010-2015. Portugal: EMEC. 2016.
Book chapter
  1. Simões, João Braz; Rui DM Travasso; Costa, Ernesto; Baptista, Tiago. "Generating Vascular Networks: A Reinforcement Learning Approach". In Machine Learning, Optimization, and Data Science, 139-153. Springer Nature Switzerland, 2023.
    10.1007/978-3-031-25891-6_11
  2. Lori, N.F.; Lavrador, R.; Fonseca, L.; Santos, C.; Travasso, R.; Pereira, A.; Rossetti, R.; Sousa, N.; Alves, V.. "Reducing computation time by Monte Carlo method: An application in determining axonal orientation distribution function". 2016.
    10.1371/journal.pone.0128111
  3. Kuksenok, Olga; Travasso, Rui D.M.; Dayal, Pratyush; Balazs, Anna C.. "Modeling the Self-Assembly of Ternary Blends that Encompass Photosensitive Chemical Reactions: Creating Defect-Free, Hierarchically Ordered Materials". In Encyclopedia of Polymer Blends, 269-306. Wiley-VCH Verlag GmbH & Co. KGaA, 2016.
    10.1002/9783527805204.ch8
  4. Quinas-Guerra, M.M.; Ribeiro-Rodrigues, T.M.; Rodríguez-Manzaneque, J.C.; Travasso, R.D.M.. "Understanding the Dynamics of Tumor Angiogenesis: A Systems Biology Approach". 2013.
    10.1007/978-3-319-31307-8_10
  5. M. Travasso, Rui D.. "The Mechanics of Blood Vessel Growth". In Vasculogenesis and Angiogenesis - from Embryonic Development to Regenerative Medicine. InTech, 2011.
    10.5772/34615
Conference paper
  1. Dias Soares Quinas Guerra, M.M.; Travasso, R.D.M.. "Novel approach to vascular network modeling in 3D". 2012.
  2. Santos, C.; Lavrador, R.; Caetano, G.; Lori, N.F.; Travasso, R.D.M.. "Use of Shannon information to relate function and structure in the brain using diffusion spectrum imaging MRI". 2012.
    10.1109/ENBENG.2012.6331344
Journal article
  1. Griffith, Matthew; Araújo, Adérito; Rui DM Travasso; Salvador, Armindo. "The architecture of redox microdomains: Cascading gradients and peroxiredoxins’ redox-oligomeric coupling integrate redox signaling and antioxidant protection". Redox Biology 69 (2024): 103000. http://dx.doi.org/10.1016/j.redox.2023.103000.
    10.1016/j.redox.2023.103000
  2. Sales, J. G. B.; Rui DM Travasso; Buckeridge, M. S.; Carvalho, S. A.. "A coupled logistic map lattice model for two competing species". The European Physical Journal Plus 138 11 (2023): http://dx.doi.org/10.1140/epjp/s13360-023-04643-5.
    10.1140/epjp/s13360-023-04643-5
  3. Melo, Soraia; Guerrero, Pilar; Moreira Soares, Maurício; Bordin, José Rafael; Carneiro, Fátima; Carneiro, Patrícia; Dias, Maria Beatriz; et al. "The ECM and tissue architecture are major determinants of early invasion mediated by E-cadherin dysfunction". Communications Biology 6 1 (2023): http://dx.doi.org/10.1038/s42003-023-05482-x.
    10.1038/s42003-023-05482-x
  4. Rui DM Travasso; Coelho-Santos, Vanessa. "Image-based angio-adaptation modelling: a playground to study cerebrovascular development". Frontiers in Physiology 14 (2023): http://dx.doi.org/10.3389/fphys.2023.1223308.
    10.3389/fphys.2023.1223308
  5. Lopes, Catarina S.; Curty, Juliana; Carvalho, Filomena A.; Hernández-Machado, A.; Kinoshita, Koji; Santos, Nuno C.; Rui DM Travasso. "A mathematical model of fibrinogen-mediated erythrocyte–erythrocyte adhesion". Communications Biology 6 1 (2023): http://dx.doi.org/10.1038/s42003-023-04560-4.
    10.1038/s42003-023-04560-4
  6. Sousa, Tânia; Gouveia, Marcos; Rui DM Travasso; Salvador, Armindo. "How abundant are superoxide and hydrogen peroxide in the vasculature lumen, how far can they reach?". Redox Biology 58 (2022): 102527. http://dx.doi.org/10.1016/j.redox.2022.102527.
    10.1016/j.redox.2022.102527
  7. Jafari Nivlouei, Sahar; Soltani, Madjid; Shirani, Ebrahim; Salimpour, Mohammad Reza; Travasso, Rui; Carvalho, João. "A multiscale cell-based model of tumor growth for chemotherapy assessment and tumor-targeted therapy through a 3D computational approach". Cell Proliferation 55 3 (2022): http://dx.doi.org/10.1111/cpr.13187.
    10.1111/cpr.13187
  8. Gouveia, Marcos; Sorcan, Tjaša; Zemljic-Jokhadar, Špela; Rui DM Travasso; Liovic, Mirjana. "A mathematical model for the dependence of keratin aggregate formation on the quantity of mutant keratin expressed in EGFP-K14 R125P keratinocytes". PLOS ONE 16 12 (2021): e0261227. http://dx.doi.org/10.1371/journal.pone.0261227.
    10.1371/journal.pone.0261227
  9. Tânia B. Cruz; Filomena A. Carvalho; Paulo Matafome; Soares R; Nuno C. Santos; Rui D. M. Travasso; MJ Oliveira, Maria J Oliveira, M J Oliveira. "Mice with Type 2 Diabetes Present Significant Alterations in Their Tissue Biomechanical Properties and Histological Features". Biomedicines (2021): https://www.mdpi.com/2227-9059/10/1/57.
    10.3390/biomedicines10010057
  10. Simões, Rui F.; Pino, Rute; Moreira-Soares, Maurício; Kovarova, Jaromira; Neuzil, Jiri; Rui DM Travasso; Oliveira, Paulo J.; Cunha-Oliveira, Teresa; Pereira, Francisco B.. "Quantitative analysis of neuronal mitochondrial movement reveals patterns resulting from neurotoxicity of rotenone and 6-hydroxydopamine". The FASEB Journal 35 12 (2021): http://dx.doi.org/10.1096/fj.202100899r.
    10.1096/fj.202100899r
  11. Cieplak, Marek; Rui DM Travasso. "Preface to the JPCM special issue on droplets and vesicles". Journal of Physics: Condensed Matter 34 3 (2021): 030401. http://dx.doi.org/10.1088/1361-648x/ac2f6f.
    10.1088/1361-648x/ac2f6f
  12. Sousa, Flávia; Costa-Pereira, Ana Isabel; Cruz, Andrea; Ferreira, Fábio Júnio; Gouveia, Marcos; Bessa, José; Sarmento, Bruno; Rui DM Travasso; Mendes Pinto, Inês. "Intratumoral VEGF nanotrapper reduces gliobastoma vascularization and tumor cell mass". Journal of Controlled Release 339 (2021): 381-390. http://dx.doi.org/10.1016/j.jconrel.2021.09.031.
    10.1016/j.jconrel.2021.09.031
  13. Jafari Nivlouei, Sahar; Soltani, M.; Carvalho, João; Rui DM Travasso; Salimpour, Mohammad Reza; Shirani, Ebrahim. "Multiscale modeling of tumor growth and angiogenesis: Evaluation of tumor-targeted therapy". PLOS Computational Biology 17 6 (2021): e1009081. http://dx.doi.org/10.1371/journal.pcbi.1009081.
    10.1371/journal.pcbi.1009081
  14. Carvalho, Joao; Lopes, Valeria; Rui DM Travasso. "A three dimensional computer model of urothelium and bladder cancer initiation, progress and collective invasion". Informatics in Medicine Unlocked 26 (2021): 100750. http://dx.doi.org/10.1016/j.imu.2021.100750.
    10.1016/j.imu.2021.100750
  15. Zemljic Jokhadar, Špela; Stojkovic, Biljana; Vidak, Marko; Sorcan, Tjaša; Liovic, Mirjana; Gouveia, Marcos; Travasso, Rui D. M.; Derganc, Jure. "Cortical stiffness of keratinocytes measured by lateral indentation with optical tweezers". PLOS ONE 15 12 (2020): e0231606. http://dx.doi.org/10.1371/journal.pone.0231606.
    10.1371/journal.pone.0231606
  16. Carvalho, Joao; Lopes, Valeria; Travasso, Rui. "Tumor cell invasiveness in the initial stages of bladder cancer development - A computational study". International Journal for Numerical Methods in Biomedical Engineering 37 1 (2020): http://dx.doi.org/10.1002/cnm.3417.
    10.1002/cnm.3417
  17. Moreira-Soares, Maurício; Cunha, Susana P; Bordin, José Rafael; Travasso, Rui D M. "Adhesion modulates cell morphology and migration within dense fibrous networks". Journal of Physics: Condensed Matter 32 31 (2020): 314001. http://dx.doi.org/10.1088/1361-648x/ab7c17.
    10.1088/1361-648x/ab7c17
  18. Gouveia, Marcos; Zemljic-Jokhadar, Špela; Vidak, Marko; Stojkovic, Biljana; Derganc, Jure; Travasso, Rui; Liovic, Mirjana. "Keratin Dynamics and Spatial Distribution in Wild-Type and K14 R125P Mutant Cells—A Computational Model". International Journal of Molecular Sciences 21 7 (2020): 2596. http://dx.doi.org/10.3390/ijms21072596.
    10.3390/ijms21072596
  19. Vega, R.; Carretero, M.; Travasso, R.D.M.; Bonilla, L.L.. "Notch signaling and taxis mechanims regulate early stage angiogenesis: A mathematical and computational model". PLoS Computational Biology 16 1 (2020): http://www.scopus.com/inward/record.url?eid=2-s2.0-85078886873&partnerID=MN8TOARS.
    10.1371/journal.pcbi.1006919
  20. Moreira-Soares, M.; Cunha, S.P.; Bordin, J.R.; Travasso, R.D.M.. "Adhesion modulates cell morphology and migration within dense fibrous networks". Journal of Physics Condensed Matter 32 31 (2020): http://www.scopus.com/inward/record.url?eid=2-s2.0-85083693337&partnerID=MN8TOARS.
    10.1088/1361-648X/ab7c17
  21. Yáñez, Diana; Travasso, Rui D. M.; Corvera Poiré, Eugenia. "Resonances in the response of fluidic networks inherent to the cooperation between elasticity and bifurcations". Royal Society Open Science 6 9 (2019): 190661. http://dx.doi.org/10.1098/rsos.190661.
    Open access • 10.1098/rsos.190661
  22. Gerardo, Heloísa; Lima, Ana; Carvalho, João; Ramos, João R. D.; Couceiro, Sofia; Travasso, Rui D. M.; Pires das Neves, Ricardo; Grãos, Mário. "Soft culture substrates favor stem-like cellular phenotype and facilitate reprogramming of human mesenchymal stem/stromal cells (hMSCs) through mechanotransduction". Scientific Reports 9 1 (2019): http://dx.doi.org/10.1038/s41598-019-45352-3.
    10.1038/s41598-019-45352-3
  23. Faísca, Patrícia F.N.; Travasso, Rui D.M.. "Interview with Mike Kosterlitz". Europhysics News 50 3 (2019): 12-14. http://dx.doi.org/10.1051/epn/201931.
    10.1051/epn/201931
  24. Moreira-Soares, Maurício; Coimbra, Rita; Rebelo, Luís; Carvalho, João; D. M. Travasso, Rui. "Angiogenic Factors produced by Hypoxic Cells are a leading driver of Anastomoses in Sprouting Angiogenesis–a computational study". Scientific Reports 8 1 (2018): http://dx.doi.org/10.1038/s41598-018-27034-8.
    Open access • 10.1038/s41598-018-27034-8
  25. Ramos, J.R.D.; Travasso, R.; Carvalho, J.. "Capillary network formation from dispersed endothelial cells: Influence of cell traction, cell adhesion, and extracellular matrix rigidity". Physical Review E 97 1 (2018): http://www.scopus.com/inward/record.url?eid=2-s2.0-85040934946&partnerID=MN8TOARS.
    10.1016/j.jtbi.2012.10.005
  26. Torres Rojas, A.M.; Travasso, R.D.M.; Pagonabarraga, I.; Corvera Poiré, E.. "When do redundant fluidic networks outperform non-redundant ones?". EPL 117 6 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85019754567&partnerID=MN8TOARS.
    10.1007/978-94-007-4819-4_8
  27. Travasso, R.D.M.; Sampaio dos Aidos, F.; Bayani, A.; Abranches, P.; Salvador, A.. "Localized redox relays as a privileged mode of cytoplasmic hydrogen peroxide signaling". Redox Biology 12 (2017): 233-245. http://www.scopus.com/inward/record.url?eid=2-s2.0-85014574052&partnerID=MN8TOARS.
    10.1371/journal.pone.0113165
  28. Lori, N.F.; Ibañez, A.; Lavrador, R.; Fonseca, L.; Santos, C.; Travasso, R.; Pereira, A.; et al. "Processing Time Reduction: an Application in Living Human High-Resolution Diffusion Magnetic Resonance Imaging Data". Journal of Medical Systems 40 11 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84989926299&partnerID=MN8TOARS.
    10.1371/journal.pcbi.1004436
  29. Santos-Oliveira, P.; Correia, A.; Rodrigues, T.; Ribeiro-Rodrigues, T.M.; Matafome, P.; Rodríguez-Manzaneque, J.C.; Seiça, R.; Girão, H.; Travasso, R.D.M.. "The Force at the Tip - Modelling Tension and Proliferation in Sprouting Angiogenesis". PLoS Computational Biology 11 8 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84940778593&partnerID=MN8TOARS.
    10.1007/s10916-016-0594-2
  30. Torres Rojas, A.M.; Romero, A.M.; Pagonabarraga, I.; Travasso, R.D.M.; Poiré, E.C.. "Obstructions in vascular networks: Relation between network morphology and blood supply". PLoS ONE 10 6 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84939243792&partnerID=MN8TOARS.
    10.1209/0295-5075/117/64002
  31. Gandica, Y.; Schwarz, T.; Oliveira, O.; Travasso, R.D.M.. "Hypoxia in vascular networks: A complex system approach to unravel the diabetic paradox". PLoS ONE 9 11 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84912006443&partnerID=MN8TOARS.
    10.1103/PhysRevE.97.012408
  32. Flores, J.; Meza Romero, A.; Travasso, R.D.M.; Corvera Poiré, E.. "Flow and anastomosis in vascular networks". Journal of Theoretical Biology 317 (2013): 257-270. http://www.scopus.com/inward/record.url?eid=2-s2.0-84869224233&partnerID=MN8TOARS.
    10.1016/j.redox.2017.01.003
  33. Faísca, P.F.N.; Travasso, R.D.M.; Parisi, A.; Rey, A.. "Why do protein folding rates correlate with metrics of native topology?". PLoS ONE 7 4 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84871062621&partnerID=MN8TOARS.
    10.1063/1.3485286
  34. Faísca, P.F.; Travasso, R.D.; Parisi, A.; Rey, A.. "Why do protein folding rates correlate with metrics of native topology?". PloS one 7 4 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84860490786&partnerID=MN8TOARS.
    10.1109/ENBENG.2012.6331381
  35. Travasso, R.D.M.; Poiré, E.C.; Castro, M.; Rodrguez-Manzaneque, J.C.; Hernández-Machado, A.. "Tumor angiogenesis and vascular patterning: A mathematical model". PLoS ONE 6 5 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-79957769556&partnerID=MN8TOARS.
    10.1371/journal.pone.0035599
  36. Emmerich, H.; Travasso, R.. "Phase-field simulations: Materials Science meets Biology and Medicine". Philosophical Magazine 91 1 (2011): 1-2. http://www.scopus.com/inward/record.url?eid=2-s2.0-78249282287&partnerID=MN8TOARS.
    10.1080/14786435.2010.501771
  37. Travasso, R.D.M.; Castro, M.; Oliveira, J.C.R.E.. "The phase-field model in tumor growth". Philosophical Magazine 91 1 (2011): 183-206. http://www.scopus.com/inward/record.url?eid=2-s2.0-78349283121&partnerID=MN8TOARS.
    10.1080/14786435.2011.534686
  38. Faísca, P.F.N.; Nunes, A.; Travasso, R.D.M.; Shakhnovich, E.I.. "Non-native interactions play an effective role in protein folding dynamics". Protein Science 19 11 (2010): 2196-2209. http://www.scopus.com/inward/record.url?eid=2-s2.0-78349295630&partnerID=MN8TOARS.
    10.1088/1478-3975/7/1/016009
  39. Faísca, P.F.N.; Travasso, R.D.M.; Charters, T.; Nunes, A.; Cieplak, M.. "The folding of knotted proteins: Insights from lattice simulations". Physical Biology 7 1 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77949803585&partnerID=MN8TOARS.
    10.1002/pro.498
  40. Travasso, R.D.M.; Faísca, P.F.N.; Rey, A.. "The protein folding transition state: Insights from kinetics and thermodynamics". Journal of Chemical Physics 133 12 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77957731766&partnerID=MN8TOARS.
    10.1371/journal.pone.0019989
  41. Oliveira, J.C.R.E.; Braga, M.H.; Travasso, R.D.M.. "Simulation of the spinodal phase separation dynamics of the Bi-Zn system". Journal of Non-Crystalline Solids 354 47-51 (2008): 5340-5342. http://www.scopus.com/inward/record.url?eid=2-s2.0-55549095091&partnerID=MN8TOARS.
    10.1016/j.jnoncrysol.2008.07.043
  42. Faísca, P.F.N.; Travasso, R.D.M.; Ball, R.C.; Shakhnovich, E.I.. "Identifying critical residues in protein folding: Insights from f-value and Pfold analysis". Journal of Chemical Physics 129 9 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-51349086269&partnerID=MN8TOARS.
    10.1063/1.2973624
  43. Travasso, R.D.M.; Telo Da Gama, M.M.; Faísca, P.F.N.. "Pathways to folding, nucleation events, and native geometry". Journal of Chemical Physics 127 14 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-35248828677&partnerID=MN8TOARS.
    10.1063/1.2777150
  44. Travasso, R.D.M.; Faísca, P.F.N.; Telo Da Gama, M.M.. "Nucleation phenomena in protein folding: The modulating role of protein sequence". Journal of Physics Condensed Matter 19 28 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-34547700512&partnerID=MN8TOARS.
    10.1088/0953-8984/19/28/285212
  45. Travasso, R.D.M.; Kuksenok, O.; Balazs, A.C.. "Exploiting photoinduced reactions in polymer blends to create hierarchically ordered, defect-free materials". Langmuir 22 6 (2006): 2620-2628. http://www.scopus.com/inward/record.url?eid=2-s2.0-33645513763&partnerID=MN8TOARS.
    10.1021/la053350d
  46. Kuksenok, O.; Travasso, R.D.M.; Balazs, A.C.. "Dynamics of ternary mixtures with photosensitive chemical reactions: Creating three-dimensionally ordered blends". Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 74 1 (2006): http://www.scopus.com/inward/record.url?eid=2-s2.0-33749025021&partnerID=MN8TOARS.
    10.1103/PhysRevE.74.011502
  47. Travasso, R.D.M.; Kuksenok, O.; Balazs, A.C.. "Harnessing light to create defect-free, hierarchically structured polymeric materials". Langmuir 21 24 (2005): 10912-10915. http://www.scopus.com/inward/record.url?eid=2-s2.0-28844492040&partnerID=MN8TOARS.
    10.1021/la052511a
  48. Travasso, R.D.M.; Buxton, G.A.; Kuksenok, O.; Good, K.; Balazs, A.C.. "Modeling the morphology and mechanical properties of sheared ternary mixtures". Journal of Chemical Physics 122 19 (2005): http://www.scopus.com/inward/record.url?eid=2-s2.0-21444455063&partnerID=MN8TOARS.
    10.1063/1.1903883
  49. Bray, A.J.; Cavagna, A.; Travasso, R.D.M.. "Interface fluctuations, Burgers equations, and coarsening under shear". Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 65 1 (2002): http://www.scopus.com/inward/record.url?eid=2-s2.0-41349097675&partnerID=MN8TOARS.
    10.1103/PhysRevE.65.016104
  50. Travasso, R.D.M.; Bray, A.J.; Cavagna, A.. "Dynamics and delocalization transition for an interface driven by a uniform shear flow". Journal of Physics A: Mathematical and General 34 13 (2001): http://www.scopus.com/inward/record.url?eid=2-s2.0-0035815592&partnerID=MN8TOARS.
    10.1088/0305-4470/34/13/106
  51. Bray, A.J.; Cavagna, A.; Travasso, R.D.M.. "Interface fluctuations under shear". Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 64 1 (2001): 1-3. http://www.scopus.com/inward/record.url?eid=2-s2.0-84983710589&partnerID=MN8TOARS.
    10.1103/PhysRevE.64.012102
  52. Cavagna, A.; Bray, A.J.; Travasso, R.D.M.. "Ohta-Jasnow-Kawasaki approximation for nonconserved coarsening under shear". Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 62 4 B (2000): 4702-4719. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034293772&partnerID=MN8TOARS.
  53. Swift, M.R.; Bokil, H.; Travasso, R.D.M.; Bray, A.J.. "Glassy behavior in a ferromagnetic p-spin model". Physical Review B - Condensed Matter and Materials Physics 62 17 (2000): 11494-11498. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034312647&partnerID=MN8TOARS.
    10.1103/PhysRevB.62.11494
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2023/11/06 Adhesion modulates cell migration and endothelial cell dynamics International Conference on Flow Dynamics 2023
(Sendai, Japan)
2023/11/06 Heart Rate in Mammals International Conference on Flow Dynamics 2023
(2023, Japan)
2023/08/14 Fibrinogen-Mediated Erythrocyte-Erythrocyte Adhesion: Clinical Relevance, Experimental Assessment and Mathematical Modeling 11th International Conference on Biological Physics
(Seoul, South Korea)
2023/07/04 Localised H2O2 gradients in the vasculature lumen and in the cellular cytoplasm SFRR-E Webinar Series “Emerging leaders in redox biology”
2023/03/14 Adhesion modulates cell migration, erythrocyte morphology and endothelial cell Dynamics Immuno-engineering workshop
(Turku, Finland)
2023/02/22 Movimento, Difusão, Tensão e Pressão - A Física na Biologia IX Jornadas de Engenharia Física
(Lisbon, Portugal)
2023/01/11 Adhesion modulates cell migration, erythrocyte morphology and endothelial cell Dynamics LI Winter Meeting On Statistical Physics
(Guanajuato, Mexico)
2023/01 Adhesion modulates cell migration, erythrocyte morphology and endothelial cell Dynamics Programa de Verão 2023, Laboratório Nacional de Computação Científica
(Rio de Janeiro, Brazil)
2022/11/10 Adhesion modulates cell migration, erythrocyte morphology and endothelial cell Dynamics
Universidade de Lisboa (Lisbon, Portugal)
2022/10/01 Debate – Futuro da Investigação em Matéria Condensada
Universidade do Porto (Porto, Portugal)
2022/09/18 Generating Vascular Networks: a Reinforcement Learning Approach 8th International Conference on Machine Learning, Optimization & Data Science – LOD 2022
(Siena, Italy)
2022/09/05 Adhesion modulates cell migration and endothelial cell dynamics Topology, Physics, and Chemistry of Soft Matter
(Trento, Italy)
2022/08/30 A Simulação Computacional em Biologia
Universidade do Porto (Porto, Portugal)
2022/06/08 Effect of Anti-VEGF Presentation in Controlling Vascular Development 56th Annual Scientific Meeting of ESCI
(Bari, Italy)
2022/05/30 Influence of the Underlining Duct Structure in Prostate Adenocarcinoma Progression Research School and Workshop on Mathematical Modeling of Self Organization in Medicine, Biology and Ecology
(Palermo, Italy)
2022/04/22 A Simulação Computacional em Biologia meet.Lab Coimbra
(Coimbra, Portugal)
2022/01 Intratumoral VEGF Nanotrapper Reduces Gliobastoma Vascularization and Tumor Cell Mass USACM Thematic Conference on the Role of Mathematical and Computational Modeling in Cancer Research
(United States)
2021/07/25 Adhesion modulates cell morphology and migration within dense fibrous networks 16th U.S. National Congress on Computational Mechanics
(United States)
2021/06/11 Computational insights into the regulatory role of adhesion in metastatic invasion 55th Annual Scientific Meeting of ESCI
2021/06 How Far can H2O2 Travel in Blood Circulation? Virtual SMB 2021 Annual Meeting
(United States)
2021/06 How Far can H2O2 Travel in Blood Circulation? 55th Annual Scientific Meeting of ESCI
2021/06 Fibrinogen-Mediated Erythrocyte Adhesion Virtual SMB 2021 Annual Meeting
(United States)
2021/06 Fibrinogen-Mediated Erythrocyte Adhesion 55th Annual Scientific Meeting of ESCI
2021/06 Mathematical Perspective on Keratin Aggregate Formation in Keratinocytes with the Severe K14 R125P Mutation 55th Annual Scientific Meeting of ESCI
2021/06 Role of prostate gland network structure in early stage prostate cancer growth Virtual SMB 2021 Annual Meeting
2021/06 Role of prostate gland network structure in early stage prostate cancer growth 55th Annual Scientific Meeting of ESCI
2021/06 Three dimensional computer model of urothelium, bladder cancer development and collective tumor invasion 55th Annual Scientific Meeting of ESCI
2021/06 3D Multiscale Modeling of Chemotherapeutic Drug Delivery to Malignant Tumors Virtual SMB 2021 Annual Meeting
2021/06 3D Multiscale Modeling of Chemotherapeutic Drug Delivery to Malignant Tumors 55th Annual Scientific Meeting of ESCI
2021/06 Tip cell migration in sprouting angiogenesis: The role of extracellular matrix mechanics Virtual SMB 2021 Annual Meeting
2021/06 Adhesion modulates cell morphology and migration within dense fibrous networks Virtual SMB 2021 Annual Meeting
(United States)
2021/03 How Far can H2O2 Travel in Blood Circulation? 20th Biennial Meeting of SFRR International
2020/09/20 Data Extraction from Mitochondrial Motility Tracking using Computational Algorithms ESCI Virtual Meeting 2020 – COVID Edition
2020/07/29 Viagens Olímpicas
Centro Cultural Penedo da Saudade
2020/02/28 Mathematical Modeling of Cell Movement and Angiogenesis
Universidade de Coimbra (Coimbra, Portugal)
2019/09/01 Modeling angiogenesis and tumor growth FEBS Advanced Lecture Course on Oncometabolism: From Conceptual Knowledge to Clinical Applications
(Luso, Portugal)
2019/08/07 Keratin Dynamics and Cortical Stiffness in Mutant Cells - Computational and Experimental Minisymposium Biologia Computacional, in Ciência 2019
(Lisbon, Portugal)
2019/05/29 Growing Nanofluidic Systems: Angioenesis in Three Dimensions Micro and Nanofluidics: from Technology to Science
(Benasque, Spain)
2019/05/10 Influence of Matrix Rigidity on Blood Vessel Growth 2nd Portuguese Condensed Matter Physics Meeting
(Porto, Portugal)
2019/04/01 Mathematical modelling of migrating cells and angiogenesis Mechanobiology of Migrating Cells - From Basic Science to the Clinic
(Coimbra, Portugal)
2019/04/01 Cytoskeletal mutations and keratinocyte dynamics and elasticity Mechanobiology of Migrating Cells - From Basic Science to the Clinic
(Coimbra, Portugal)
2019/04/01 Mechanomodulation of human stem cells: a crosstalk between cytoskeleton and nucleus Mechanobiology of Migrating Cells - From Basic Science to the Clinic
(Coimbra, Portugal)
2019 Modelação Computacional de Sistemas Biológicos
Colégio da Nossa Senhora da Assunção, Anadia, Portugal
2019 Physics, Blood Vessels and Cancer
Escola Secundária Lima de Faria, Cantanhede
2018/11/22 Mathematical Modeling of Cell Movement and Angiogenesis
University of Dundee (Dundee, United Kingdom)
2018/11/14 Mathematical Modeling of Cell Movement and Angiogenesis
Universidade do Porto (Porto, Portugal)
2018/11/08 Mathematical Modeling of Cell Movement and Angiogenesis Mechanobiology of cells in tissues in health and disease conference
(Ljubljana, Slovenia)
2018/10/10 Proliferation and Movement – Modeling Angiogenesis
Universidade de Aveiro (Aveiro, Portugal)
2018/08/30 Understanding cell shape and migration – a computational study Física 2018
(Covilhã, Portugal)
2018/08/30 Simulating vessel growth with extracellular matrix remodeling Física 2018
(Covilhã, Portugal)
2018/07/23 Modelling cell shape and migration: a phase-field approach
11th European Conference on Mathematical and Theoretical Biology (Lisbon, Portugal)
2018/06/11 Mechanics and Anastomoses in Angiogenesis Minisymposium in Multiscale in-silico modelling of cancer biophysics and therapy, 6th European Conference on Computational Mechanics (ECCM 6) and 7th European Conference on Computational Fluid Dynamics (ECFD 7)
(Glasgow, United Kingdom)
2018/06/04 Mechanics and Anastomoses in Angiogenesis New Trends in Mathematical Biology
(Bellaterra, Spain)
2018/05/30 The stiffness of keratinocytes at small deformations depends on keratin dynamics EuroCellNet Scientific Meeting
(Brussels, Belgium)
2018/04/30 Mechanics and Anastomoses in Sprouting Angiogenesis Fields Institute Workshop “Modeling biological phenomena from nano to macro scale”
(Toronto, Canada)
2018/02/22 Keratin dynamics: solving PDEs inside moving domains using phase-field methods Measuring and Modelling Cell Migration
(Vienna, Austria)
2018/01/17 Proliferation and Movement – Modeling Angiogenesis
Universidad Carlos 3 (Leganes, Spain)
2018/01/10 Proliferation and Movement – Modeling Angiogenesis
UC Biotech (Cantanhede, Portugal)
2017/09/11 Simulating vessel growth with extracellular matrix remodeling ECCOMAS MultiBioMe
(Vienna, Austria)
2017/07/03 Modeling Tension and Adhesion in Cell Movement and Angiogenesis Session “Oncology” at Ciência 2017
(Lisbon, Portugal)
2017/06/29 Angiogenic Factors Produced by Hypoxic Cells drive Anastomoses in Sprouting Angiogenesis
University of Castilla la Mancha (Castilla la Mancha, Spain)
2017/06/26 Modeling Tension and Adhesion in Tumor Cell Movement and Angiogenesis Mini-symposium “Modelos Matemáticos Aplicados a la Biología del Cáncer” at CEDYA+CMA
(Cartagena, Spain)
2017/03/23 Modeling Tension and Adhesion in Cell Movement and Angiogenesis EuroCellNet Workshop
(Prague, Czech Republic)
2017 Physics, Blood Vessels and Cancer
Colégio Rainha D. Leonor, Caldas da Rainha
2016/12/05 Angiogenic factors produced by hypoxic cells drive anastomosis in sprouting angiogenesis Angiogenesis and Cell Motility at Mathematics of Complex Systems: from precision medicine to smart cities
(Coimbra, Portugal)
2016/12/05 Mechanically-driven pattern formation in cell cultures Angiogenesis and Cell Motility at Mathematics of Complex Systems: from precision medicine to smart cities
(Coimbra, Portugal)
2016/11/29 Forces and Proliferation in Sprouting Angiogenesis
Centrum Wiskunde & Informatica (CWI) (Amsterdam, Netherlands)
2016/10/17 Tumor Angiogenesis: a Mathematical Model in Three Dimensions Physical Biology of Tissue Morphogenesis - Mechanics, Metabolism and Signaling
(Dresden, Germany)
2016/09/08 Vascular Growth in Tumor Angiogenesis: a Mathematical Model in Three Dimensions Física 2016
(Braga, Portugal)
2016/06/20 Mechanics of Sprouting Angiogenesis in Tumors Modelling and Experiments in Drug Delivery Systems
(Coimbra, Portugal)
2016/06/15 Mechanics of Sprouting Angiogenesis in Tumors 5th International Iberian Biophysical Congress
(Porto, Portugal)
2016/06/05 Mechanics of Sprouting Angiogenesis in Tumors Mini-symposium “Tumor growth modeling and the mechanical aspects of cancer” at the Eccomas Congress 2016
(Creta, Greece)
2016/06/04 Using Mathematics and Physics to Understand Vessel Growth Session “Matemática e Ciências da Vida” at Ciência 2016
(Lisbon, Portugal)
2016/02/29 Examples of Modeling Vessel Growth Panel: Fighting Against Cancer: New Emerging Therapies, Bioengineering Week
(Lisbon, Portugal)
2015/12/17 Using Mathematical Modeling to Understand Sprout Elongation in Sprouting Angiogenesis XIII CNC Annual Meeting
(Coimbra, Portugal)
2015/10/21 The force at the tip: modeling tension and proliferation in sprouting angiogenesis
University of Lisbon (Lisbon, Portugal)
2015/09/09 The force at the tip: modeling tension and proliferation in sprouting angiogenesis II International Symposium on Basic and Clinical Investigation on Globlastoma
(Toledo, Spain)
2015/04/02 Tensão e proliferação celular no crescimento de vasos sanguíneos
Federal University of Rio Grande do Sul (Porto Alegre, Brazil)
2015/04/01 Tensão e proliferação celular no crescimento de vasos sanguíneos
Federal University of Pelotas (Pelotas, Brazil)
2015 Experimental Physics without Laboratory
Penafiel Secondary School, Penafiel
2015 Physics, Biology and Cancer
Agrupamento de Escolas de Penacova, Penacova
2014/09/08 Tumor angiogenesis and vascular patterning: a mathematical model XVI UFPel Meeting of Postgraduate
(Pelotas, Brazil)
2014/06/15 Mechanical Forces in Vascular Sprouting 9th European Conference on Mathematical and Theoretical Biology
(Gothenburg, Sweden)
2014 Physics in Biology and Medicine
Summer School for High School Students, University of Coimbra
2013/12/20 Kinetics of the folding process: Important lessons from coarse-grained models 1st Meeting of Young Researchers in Computational Structural Biology (EJIBCE)
(Porto, Portugal)
2013/11/20 Mathematical Modeling of Angiogenesis - Flow, Elasticity and Experiments
University of Coimbra (Coimbra, Portugal)
2013/05/27 Mathematical Modeling of Angiogenesis - Flow, Elasticity and Experiments Mathways into Cancer II
(Carmona, Spain)
2013/01/22 Mathematical Modeling of Pathological Angiogenesis
University of Lisbon (Lisbon, Portugal)
2013 Physics, Biology and Cancer
Agrupamento de Escolas de Ourém, Ourém
2012/08/07 Growing capillaries with the phase-field model Mini-symposium "Mathematical modeling and simulations of angiogenesis II" at the SIAM Life Sciences 2012
(San Diego, United States)
2012/07/10 Forces and Flow in Growing Vascular Networks - a multidisciplinary approach
Basque Center for Biophisics (Bilbao, Spain)
2012 Experimental Physics without Laboratory Agrupamento de Escolas de Tarouca, Tarouca
2011/10/04 Why do protein folding rates correlate with metrics of native topology
University of Coimbra (Coimbra, Portugal)
2011/09/30 Why do protein folding rates correlate with metrics of native topology
University of Porto (Porto, Portugal)
2011/05/19 Delivering nutrients to a tissue: blood flow and growing capillaries
University of Bayreuth (Bayreuth, Germany)
2011/02/16 Delivering nutrients to a tissue: blood flow and growing capillaries
University of Coimbra (Coimbra, Portugal)
2011 Physics, Biology and Cancer
Camilo Castelo Branco Secondary School, Vila Real
2010/11/30 Phase-Field Modeling in Tumor Growth and Angiogenesis
University of Castilla la Mancha (Ciudad Real, Spain)
2010/07/07 Phase-field modeling in tumor growth and angiogenesis First Porto Meeting on Theory and Experiment in Nonlinear Physics
(Porto, Portugal)
2009/07 Towards a model for angiogenesis Summer school: New trends in physics and mechanics of biological systems
(Les Houches, France)
2008/11/19 Towards a phase-field description of tumor angiogenesis
University of Porto (Porto, Portugal)
2008/11/12 Phase-field description of tumor angiogenesis Phase Field Simulations: Material Science meets Biology and Medicine
(Dresden, Germany)
2008/10/02 Growing Blood Vessels in a Computer The Physics of Biological Systems: From Genes to Societies
(Lisbon, Portugal)
2008/04/27 Simulation of the spinodal phase separation dynamics of the Bi-Zn system Non-Crystalline Solids
(Porto, Portugal)
2008/02/27 Nucleation phenomena in protein folding: role of chain length and native geometry
Superior Institute of Engineering of Lisbon (Lisbon, Portugal)
2007/02/02 Nucleation phenomena in protein folding: role of chain length and native geometry Proteins in Health and Disease: from Structure to Function
(Lisbon, Portugal)
2007 Nucleation phenomena in protein folding: role of chain length and native geometry
University of Barcelona (Barcelona, Spain)
2007 Nucleation phenomena in protein folding: role of chain length and native geometry
University of Porto (Porto, Portugal)
2006/11/08 Nucleation phenomena in protein folding: role of chain length and native geometry A One Day Workshop on Protein Folding
(Lisbon, Portugal)
2006/03/13 Harnessing light to create defect-free hierarchically structured ternary mixtures APS March Meeting
(Baltimore, United States)
2006/03/13 Dynamics of ternary mixtures with photosensitive chemical reactions: designing three dimensionally ordered blends APS March Meeting
(Baltimore, Portugal)
2006 Harnessing light to create hierarchically ordered, defect-free polymeric materials
University of Lisbon (Lisbon, Portugal)
2006 Como usar a luz para desenhar padrões em misturas ternárias
University of Porto (Porto, Portugal)
2004 Interface fluctuations, Burgers equations and coarsening under shear
University of Barcelona (Barcelona, Spain)
2004 Flutuações interfaciais e coarsening com tensão de corte
University of Aveiro (Aveiro, Portugal)
2003 Flutuações interfaciais e coarsening com tensão de corte
University of Porto (Porto, Portugal)

Supervision

Thesis Title
Role
Degree Subject (Type)
Institution / Organization
2016 - Current PhD - Deep Learning to Generate Vascular Networks
Co-supervisor
2022 - 2027 PhD - Personalized Forecast of Prostate Adenocarcinoma Growth and Proton Therapy Response
Supervisor
Biomedical Engineering (PhD)
2022 - 2026 PhD - Modeling the radiobiological effects of radiation therapy for breast cancer
Co-supervisor
2023 - 2024 MSc - Modelling Leukocyte Adhesion
Supervisor
2023 - 2024 MSc - Predicting Neurovascular Adaptation in Neonatal Mice
Co-supervisor
2023 - 2024 MSc - The Cribiform Structure in Prostate Cancer
Co-supervisor
2023 - 2024 MSc - Vascular Adaptation on Growing Adipose Tissues
Co-supervisor
2022 - 2024 MSc - Computational model for the adhesion between red blood cells and their deformation
Supervisor
2022 - 2023 MSc - Desenvolvimento de um modelo computacional do cancro gástrico difuso hereditário
Supervisor
2017 - 2023 PhD - Modelling Endothelial Cells' Collective Movement and Keratin Cytoskeleton Dynamics using the Phase Field Method
Supervisor
2021 - 2022 MSc - Desenvolvimento de um modelo computacional de desenvolvimento de um tumor gástrico difuso
Co-supervisor
2021 - 2021 MPhil - Endothelial Cells and Blood Flow - a mechanical partnership
Supervisor
2020 - 2021 MsC - Desenvolvimento de Modelo Computacional de Cancro na Próstata
Supervisor
2015 - 2020/07/17 PhD - Multi-phase-field models for biological systems - from cells to vessels
Supervisor
2019/04/01 - 2020/05/31 Postdoc - Modeling Angiogenesis in Type 2 Diabetes Mellitus - integrating experimental and theoretical approaches
Supervisor
2017 - 2018 MSc - Mathematical Model for the Growth of Glioblastoma
Supervisor
2016 - 2017 MSc - Simulating Vessel Growth with Extracellular Matrix Remodeling
Supervisor
2015 - 2016 Postdoc - Coupling biological and physical processes in cell migration in 3D
Supervisor
2015 - 2016 MSc - Mechanically-Driven Pattern Formation in Cell Cultures
Co-supervisor
2015 - 2016 MSc - Model for Angiogenesis in Three Dimensions taking into account Tissue Elasticity
Supervisor
2015 - 2016 MSc - Modeling Axonal Growth
Supervisor
2015 - 2016 MSc - Contribuições para a modelação de fluxos sanguíneos em redes de capilares da retina
Co-supervisor
2015 - 2015 MSc - Can Peroxiredoxin-2 protect Vascular Endothelial Growth Factor Receptor-2 from Oxidation by Hydrogen Peroxide?
Co-supervisor
2012 - 2015 MSc - Coupling Blood Flow and Vascular Growth in Three Dimensions
Co-supervisor
2013 - 2014 MSc - Regulation of Blood Vessel Growth
Supervisor
2012 - 2014 Postdoc - Angiogenesis in Diabetic Retinopathy: Integrating Experiments and Modeling
Supervisor
2011 - 2013 MSc - Quantitative Characterization of Vascular Formations in Vitro and in Vivo
Co-supervisor
2011 - 2012 MSc - Morphology of Vascular Networks – A Computational Study
Supervisor
2011 - 2012 MSc - Influence of Tissue Mechanics in Blood Vessel Growth
Supervisor
2010 - 2011 MSc - Novel Approach to Vascular Network Modeling in 3D
Supervisor
2008 - 2009 MSc - Phase-Field Models for Tumor Growth in the Avascular Phase
Supervisor

Event organisation

Event name
Type of event (Role)
Institution / Organization
2008 - Current For the last 16 years I teach and organize the Quark! School in Physics held at the Department of Physics of the University of Coimbra for the best and brightest high school students in the country; it also offers preparation for the International Physics Olympiad. I have a strong involvement with the Quark! school typically teaching every monthly session, and often more than one topic. I am one of the coordinators of the Quark! school since 2016. (2008)
2008 - Current Yearly two one-week intensive sets of experimental and theoretical classes tailored to prepare the selected students for the International and Ibero-American Physics Olympiads. I coordinate the organization of these preparation weeks since 2014, and participate since 2008. (2008)
2015 - 2024 Coordination and organization of the seven international Summer Schools in Computational Biology - From Molecules to Tissues. One and a half week summer school with between 24 and 35 students from different backgrounds (cell biologists, biochemists, biomedical engineers, chemists, physicists and mathematicians). Within these schools I also lectured and designed a one-day introductory level tutorial on Mathematical Models of Age Related Diseases and a two-day tutorial on Tools for Modeling Biological Systems. (2015)
2022/06/20 - 2022/06/21 Iberian Biophysics Congress (2022)
2021/06/09 - 2021/06/11 BioInformatics Mini-symposium – 55th Annual Scientific Meeting of European Society for Clinical Investigation (Virtual Edition) (2021)
Conference (Member of the Scientific Committee)
2020/12/06 - 2020/12/12 Ibero-American Physics Olympiad 2020 (academic committee) - International Physics competition with 18 countries. Creator of fourth theoretical problem. (2020/12/06)
Other (Member of the Scientific Committee)
2020/09/20 - 2020/09/20 Minisymposium in Bioinformatics and Computational Biology for Biomedicine (2020/09/20 - 2020/09/20)
Symposium (Co-organisor)
2019/04/01 - 2019/04/02 Mechanobiology of Migrating Cells - from Basic Science to the Clinic (2019/04/01 - 2019/04/02)
Meeting (Co-organisor)
2018/08/29 - 2018/09/01 Física 2018 - 21ª Conferência Nacional de Física + 28º Encontro Ibérico para o Ensino da Física (organising and scientific committees) (2018/08/29 - 2018/09/01)
Conference (Member of the Organising Committee)
2018/07/21 - 2018/07/29 International Physics Olympiad 2018 (organising committee and academic committee) - World event bringing to Lisbon students from more that 80 countries. Author of third theoretical problem. (2018/07/21 - 2018/07/29)
Other (Member of the Organising Committee)
2014 - 2018 Formation Actions for High School Teachers - Organised and taught five editions of sets of career progression lectures for high school teachers on Experimental Physics. (2014)

Event participation

Activity description
Type of event
Event name
Institution / Organization
2011 - Current Leader of the team representing Portugal at the International Physics Olympiad (11 events), Ibero-American Physics Olympiads (7 events) and European Physics Olympiads (2 events). It involves discussing, translating and correcting exams during a week period. It also permits to engage in fruitful discussions with colleagues from over 80 other nations on the scientific topics of the problems and on strategies to better prepare our students.

Jury of academic degree

Topic
Role
Candidate name (Type of degree)
Institution / Organization
2024 Vorticity fields of active turbulence (Physical Engineering) Francisco Miguel Marecos Militão Rosado Safara (Master)
Universidade de Lisboa, Portugal
2023 Influência da escolha do Mapa de Contacto no estudo do enovelamento de proteínas (Molecular Biophysics) Larissa Maria Fernando Afonso (Master)
Universidade Estadual Paulista Júlio de Mesquita Filho, Brazil
2023 Texture Entropy Features for Quantification of Interstitial Lung Diseases using Multidimensional Radiological Data (Biomedical Engineering) Miguel Mota Carvalho (Master)
Universidade de Coimbra, Portugal
2023 Biological damage quantification induced by Ra-223 in metastatic prostate cancer cell cultures (Biomedical Engineering) Daniela Filipa Mendes Cancelinha (Master)
Universidade de Coimbra, Portugal
2023 Desenvolvimento de um modelo computacional tridimensional de comunicação celular bioelétrica e sua aplicação ao desenvolvimento de organismos e iniciação cancerígena (Physical Engineering) António Miguel Prata Lima Cardoso (Master)
Universidade de Coimbra, Portugal
2022/03/30 Mathematical modelling of angiogenesis as an integrated multicellular process (Mathematics) Daria Stepanova (PhD)
Universitat Autònoma de Barcelona, Spain
2022/02/28 Identifying Prostate Cancer using Neural Network Image Segmentation (Biomedical Engineering) Leonie Apitz (Master)
Universidade de Coimbra, Portugal
2022/02/25 Permeation of weak acids and bases through lipid bilayers - modeling and validation of pH variation assay (Chemistry) Margarida Machado Cordeiro (Master)
Universidade de Coimbra, Portugal
2022 Modelling the dynamics of cellular membranes (Physics) Andreu Fernández i Gallén (PhD)
Universitat de Barcelona Facultat de Física, Spain
2022 Effects of Ra-223 in cellular models of metastatic prostate cancer (Biomedical Engineering) Carolina Daniela Santos Fernandes (Master)
Universidade de Coimbra, Portugal
2022 A stochastic model of malaria transmission (Complexity Sciences) João Fernando Sequeira (PhD)
ISCTE-Instituto Universitário de Lisboa, Portugal
2021/12/09 Neuronal inhibition and noise in perceptual decision-making (Biomedical Engineering [PhD project]) Maria Inês Cravo (Other)
Universidade de Coimbra, Portugal
2021/05/06 Mechanomodulation of the mesenchymal stem cell proteome: elucidation of mechanisms and evaluation as a therapeutic opportunity (Biomedicine and Experimental Biology) Catarina de Barros Pinto Salvador Domingues (PhD)
Universidade de Coimbra Centro de Inovação em Biomedicina e Biotecnologia, Portugal
2020/07/24 Exploring Deep Learning Architectures and Reliability of Several Datasets to Predict Protein-Protein Interactions (Biomedical Engineering) Luís Pedro Baptista Silva (Master)
Universidade de Coimbra, Portugal
2019/11/26 Disclosing the aggregation mechanism of ß2-microglobulin in amyloid disease (Biology) Rui João de Sousa Loureiro (PhD)
Universidade de Lisboa Faculdade de Ciências, Portugal
2019/09/23 Characterization of the Interaction and Permeation of Drug-Like Molecules Through Membrane Models including P-Glycoprotein (Neurobiology) Susana Vieira Pinto da Cunha (Master)
Universidade de Coimbra, Portugal
2018/11/15 Effects of Confinement in the Folding of Knotted Proteins (Physics) João Nuno Correia Especial (Master)
Universidade de Lisboa Faculdade de Ciências, Portugal
2018/10/03 A mathematical model of the phosphoinositide pathway in human pulmonary epithelial cells (Biology) Daniel Vigário Olivença (PhD)
Universidade de Lisboa Faculdade de Ciências, Portugal
2016/12/09 Active and Passive Defenses against Oxidative Stress: a computational study (Biomedicine and Experimental Biology) Rui Manuel Vicente Benfeitas (PhD)
Universidade de Coimbra, Portugal
2015/09/05 Modeling Physiological Systems – a Computational and hybrid approach (Biomedical Engineering) Diogo Faustino de Noronha Osório (Master)
Universidade de Coimbra, Portugal
2015/07/23 Creating Evaluation Functions for Oncological Diseases based on PET/CT (Biomedical Engineering) Mariana Antunes Nogueira (Master)
Universidade de Coimbra, Portugal
2014/09/22 Development and implementation of software for parametric quantification in perfusion studies of the liver (Biomedical Engineering) Ana Mafalda Sanches Teixeira (Master)
Universidade de Coimbra, Portugal
2013/09/18 Search acceleration methods for large retinal image databases (Biomedical Engineering) Diana Craveiro Mourão (Master)
Universidade de Coimbra, Portugal
2013/09/16 The role of miR-21 in the bone marrow microenvironment (Cellular and Molecular Biology) Celina Maria dos Reis Parreira (Master)
Universidade de Coimbra, Portugal
2009/09/17 25-Hydroxycholesterol increases IL-8 production in retinal pigment epithelial cells by activation of PI3K and ERK pathways (Biomedical Engineering) Eliana Filipa da Silva Murteira (Master)
Universidade de Coimbra, Portugal
2008/11/28 Shapes in Cells. Dynamic instabilities, morphology, and curvature in biological membranes (Physics) Felix Campelo (PhD)
Universitat de Barcelona Departament de Química-Física, Spain

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2010 - 2024 Over 14 years of lecturing courses at PhD, master and undergraduate levels. Examples of courses I taught are: Quantitative Modeling in Biology, Biological Physics, Computational Biology, Statistical Physics, Advanced Statistical Physics, Computational Methods for Biomedicine, Atomic Physics, Thermodynamics and Transfer Processes, Electromagnetism, Condensed Matter Physics, Computers and Programming, Computational Modeling, Phase Transitions and Group Theory, Applied Physics, Physics (zeroth year), General Physics Universidade de Coimbra, Portugal

Evaluation committee

Activity description
Role
Institution / Organization Funding entity
2004 - Current Reviewer of manuscripts in several journals including PLoS Computational Biology, Cancer Science, PLoS ONE, Physical Review E, Physical Biology, Journal of Theoretical Biology, Bulletin of Mathematical Biology, Mathematical Biosciences, Mathematical Biosciences and Engineering, Cell Proliferation, Health and Technology, Biomechanics and Modeling in Mechanobiology, Journal of Engineering Mathematics, Bio-Algorithms and Med-Systems, Computational and Structural Biotechnology Journal, Colloidal and Polymer Science.

Interview (tv / radio show)

Program Topic
2012 - 2012 República do Saber: Report on research carried out within my group (TV)
2011 - 2011 Bom Dia Portugal: Live interview (TV)
2011 - 2011 Mundo Novo: Report on research carried out in my group (radio)

Journal scientific committee

Journal title (ISSN) Publisher
2016 - Current Frontiers in Physics
Distinctions

Award

2024 Host for New Talents in Science (Physics section)
Fundacao Calouste Gulbenkian, Portugal
2022 Host for New Talents in Science (Physics section)
Fundacao Calouste Gulbenkian, Portugal
2007 Estimulo a Investigacao: "The Role of Surface Morphology in Tumor Growth
Fundacao Calouste Gulbenkian, Portugal
1999 Professor Moreira de Araujo: Best Student of final year of Physics degree, U. Porto
1999 Eng. Antonio de Almeida: Best Student of Physics degree, U. Porto
Fundacao Engenheiro Antonio de Almeida, Portugal
1995 Lions V. N. Famalicao: Best student of last year of secundary school (ESCCB)
1994 Winner of the Portuguese Physics Olimpiad

Other distinction

2013 FCT Principal Researcher
Fundação para a Ciência e a Tecnologia, Portugal