???global.info.a_carregar???
Patrícia F.N. Faísca is Assistant Professor (with Habilitation) at the Physics Department of the Faculty of Sciences (DF-FCUL), University of Lisbon, and principal investigator at BioISI- Biosystems and Integrative Sciences Institute. She received her PhD (Physics) in 2002 at the University of Warwick (UK), as part of the Gulbenkian PhD Program in Biology and Medicine. She has a broad interdisciplinary education covering Physics, Biology and Mathematics. Her research on computational biophysics is based on the use of molecular simulations, especially of coarse-grained models. Her current research interests focus on the folding of knotted proteins, and on protein misfolding and aggregation in a disease-related context.
Read full resume ↓
Identification

Personal identification

Full name
Patrícia Ferreira Neves Faísca

Citation names

  • Faísca, Patrícia
  • Faísca, PFN
  • Faísca, Patrícia FN

Author identifiers

Ciência ID
3F14-4793-6882
ORCID iD
0000-0002-2493-2748
Google Scholar ID
qH-98hsAAAAJ&h
Researcher Id
E-9758-2010
Scopus Author Id
55889285600

Email addresses

  • pffaisca@fc.ul.pt (Professional)
  • patricia.fn.faisca@gmail.com (Personal)

Addresses

  • Departamento de Física, Faculdade de Ciências, Universidade de Lisboa. Campo Grande , 1749-016 , Lisboa, Lisboa, Portugal (Professional)

Websites

Knowledge fields

  • Exact Sciences - Physical Sciences
  • Natural sciences - Biological Sciences - Biophysics

Languages

Language Speaking Reading Writing Listening Peer-review
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
French Beginner (A1) Intermediate (B1) Beginner (A1) Intermediate (B1)
Portuguese Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
Spanish; Castilian Elementary (A2) Intermediate (B1) Beginner (A1) Intermediate (B1)
Education
Degree Classification
2021/07/01
Concluded
 Agregação em Física (Título de Agregado)
Major in Física
Universidade de Lisboa Faculdade de Ciências, Portugal
2002/09/14
Concluded
 Física (Doutoramento)
University of Warwick, United Kingdom
"Protein folding physics: In virtuo experiments" (THESIS/DISSERTATION)
2002/09/14
Concluded
 PhD in Physics (Doctor of Philosophy)
University of Warwick, United Kingdom
"Protein folding physics: In virtuo experiments" (THESIS/DISSERTATION)
 n/a
1998
Concluded
 Gulbenkain PhD Program in Biology and Medicine (PGDBM) (Doutoramento)
Instituto Gulbenkian de Ciência, Portugal
"Mass Extinction: An emergent property of ecosystems?" (THESIS/DISSERTATION)
 n/a
1994/10/14 - 1997/01/01
Concluded
 Mestrado em Física (Mestrado)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Extensão do método de Poincaré-Melnikov a órbitas homclínicas a pontos parabólicos" (THESIS/DISSERTATION)
 Muito Bom
1994/10/14 - 1997/01/01
Concluded
 MSc in Physics (Mestrado)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Extension of the Poincaré-Melnikov Method to Homoclinic Orbits to Parabolic Points" (THESIS/DISSERTATION)
 Very Good
1994/09
Concluded
 First Degree (Licenciatura)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Interfacial Properties of Three Component Mixtures" (THESIS/DISSERTATION)
Affiliation

Science

Category
Host institution 		Employer
2013/12/13 - 2013/12/29 Principal Investigator (Research) Universidade de Lisboa Faculdade de Ciências, Portugal
Universidade de Lisboa Faculdade de Ciências, Portugal
2008/01/08 - 2013/12/12 Auxiliary Researcher (Research) Universidade de Lisboa Faculdade de Ciências, Portugal
Universidade de Lisboa Faculdade de Ciências, Portugal
2007/03/01 - 2007/12/31 Postdoc (Research) Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
2003/01/01 - 2007/02/28 Postdoc (Research) Universidade de Lisboa Centro de Física Teórica e Computacional, Portugal
Universidade de Lisboa Centro de Física Teórica e Computacional, Portugal

Teaching in Higher Education

Category
Host institution 		Employer
2013/12/30 - Current Assistant Professor (University Teacher) Universidade de Lisboa Faculdade de Ciências, Portugal
Universidade de Lisboa Faculdade de Ciências, Portugal
Projects

Grant

Designation Funders
2018/10/04 - 2021/10/03 Physical Basis of Disease: The case of Dialysis Related Amyloidosis
PTDC/FIS-OUT/28210/2017
Principal investigator
Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2014/01/01 - 2015/06/30 Cystic fibrosis: Microscopic insights into the folding and gating mechanisms of F508del-CFTR through Molecular Dynamics simulations
EXPL/BBB-BQB/0749/2013
Co-Principal Investigator (Co-PI)
Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2014/02/03 - 2015/02/02 Estudos em física biológica baseados em microscopia com retroacção em força
EXPL/FIS-NAN/1395/2013
Researcher
Associação do Instituto Superior Técnico para a Investigação e Desenvolvimento, Portugal

Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2011/04/01 - 2014/09/30 The nature of protein folding
PTDC/FIS/113638/2009
Principal investigator
Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2011/04/01 - 2013/09/30 Insights into folding kinetics and designability of knotted proteins from lattice models
PTDC/QUI-QUI/112358/2009
Principal investigator
Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2010/04/01 - 2013/09/30 Intermediates states: At the crossroads of pathways to folding and pathways to disease
PTDC/SAU-GMG/098274/2008
Principal investigator
Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2005/04/02 - 2007/11/30 Sistemas complexos: da Física à Biologia e às Ciências Sociais
POCI/FIS/55592/2004
Researcher
Universidade de Lisboa Centro de Física Teórica e Computacional, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2006/01/01 - 2007/04/30 From protein folding to protein design: Exploring biological complexity via computer simulation of simple models
POCI/QUI/58482/2004
Principal investigator
Universidade de Lisboa Centro de Física Teórica e Computacional, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded

Contract

Designation Funders
2022/10/01 - Current Twinning for excellence in biophysics of protein interactions and self-assembly
TWIN2PIPSA
Co-Principal Investigator (Co-PI)
FCiênciasID Associação para a Investigação e Desenvolvimento de Ciências, Portugal
 European Commission
Ongoing
2018/10/18 - 2022 European Topology Interdisciplinary Action
CA17139
Researcher
Università degli Studi di Trento, Italy
 European Cooperation in Science and Technology
Concluded
2017/02/01 - 2021/04/30 Redes sinápticas e abordagens compreensivas de medicina personalizada em doenças neurocomportamentais ao longo da vida
SAICTPAC/0010/2015
Researcher
Universidade de Aveiro, Portugal

Universidade do Minho, Portugal

Universidade de Coimbra, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
Outputs

Publications

Book
  1. Faísca, Patrícia. A Concise Introduction to Thermodynamics for Physicists. United Kingdom: Taylor & Francis. 2022.
  2. Faísca, PFN; Gomes CM. Protein folding: An Introduction. Springer, Cham. 2019.
Book chapter
  1. Faísca, Patrícia F.N.. "Physics of protein folding". In Encyclopedia of Condensed Matter Physics, 605-618. Elsevier, 2024.
    10.1016/b978-0-323-90800-9.00263-8
Conference poster
  1. Vitorino, João N. M.; Oliveira, Nuno; Filipe E. P. Rodrigues; Faísca, Patrícia FN; Machuqueiro, Miguel. "Predicting Aggregation-Triggering ¿2m Oligomers With The Help Of MMPBSA Calculations". Paper presented in 3D-BIOINFO-PT Annual Meeting, 2022.
  2. Loureiro, Rui João; Vila-Viçosa, Diogo; Machuqueiro, Miguel; Shakhnovich, Eugene; Faísca, Patrícia. "The importance of unstructured termini in the aggregation cascade of beta-2-microglobulin: insights from molecular simulations of D76N mutant". Paper presented in EJIBCE 2018, 2018.
    10.3390/mol2net-04-06085
Journal article
  1. Sara G. F. Ferreira; Manoj K. Sriramoju; Shang-Te Danny Hsu; Patrícia F. N. Faísca; Miguel Machuqueiro. "Is There a Functional Role for the Knotted Topology in Protein UCH-L1?". Journal of Chemical Information and Modeling (2024): https://doi.org/10.1021/acs.jcim.4c00880.
    10.1021/acs.jcim.4c00880
  2. Ana P. Carapeto; Carlos Marcuello; Patrícia F. N. Faísca; Mário S. Rodrigues. "Morphological and Biophysical Study of S100A9 Protein Fibrils by Atomic Force Microscopy Imaging and Nanomechanical Analysis". Biomolecules (2024): https://doi.org/10.3390/biom14091091.
    10.3390/biom14091091
  3. Tubiana, Luca; Alexander, Gareth P.; Barbensi, Agnese; Buck, Dorothy; Cartwright, Julyan H.E.; Chwastyk, Mateusz; Cieplak, Marek; et al. "Topology in soft and biological matter". Physics Reports 1075 (2024): 1-137. http://dx.doi.org/10.1016/j.physrep.2024.04.002.
    10.1016/j.physrep.2024.04.002
  4. Especial, João N. C.; Faísca, Patrícia F. N.. "Effects of sequence-dependent non-native interactions in equilibrium and kinetic folding properties of knotted proteins". The Journal of Chemical Physics 159 6 (2023): http://dx.doi.org/10.1063/5.0160886.
    10.1063/5.0160886
  5. Oliveira, Nuno F. B.; Rodrigues, Filipe E. P.; Vitorino, João N. M.; Faísca, Patrícia F. N.; Machuqueiro, Miguel. "Interfacial Dynamics and Growth Modes of ß2-Microglobulin Dimers". Journal of Chemical Information and Modeling (2023): http://dx.doi.org/10.1021/acs.jcim.3c00399.
    10.1021/acs.jcim.3c00399
  6. João N. C. Especial; Antonio Rey; Patrícia F. N. Faísca. "A Note on the Effects of Linear Topology Preservation in Monte Carlo Simulations of Knotted Proteins". International Journal of Molecular Sciences (2022): https://doi.org/10.3390/ijms232213871.
    10.3390/ijms232213871
  7. Jules Morand; Ana Nunes; Patrícia F N Faísca. "The folding space of protein ß2-microglobulin is modulated by a single disulfide bridge". Physical Biology (2021): https://doi.org/10.1088/1478-3975/ac08ec.
    10.1088/1478-3975/ac08ec
  8. João N. C. Especial; Patrícia F. N. Faísca. "A Specific Set of Heterogeneous Native Interactions Yields Efficient Knotting in Protein Folding". The Journal of Physical Chemistry B 125 27 (2021): 7359-7367. https://doi.org/10.1021/acs.jpcb.1c03127.
    10.1021/acs.jpcb.1c03127
  9. Oliveira, Nuno F.B.; Rodrigues, Filipe E.P.; Vitorino, João N.M.; Loureiro, Rui J.S.; Faísca, Patrícia F.N.; Machuqueiro, Miguel. "Predicting stable binding modes from simulated dimers of the D76N mutant of beta-2-microglobulin". Computational and Structural Biotechnology Journal 19 (2021): 5160-5169. http://dx.doi.org/10.1016/j.csbj.2021.09.003.
    10.1016/j.csbj.2021.09.003
  10. Faísca, PFN; Loureiro, Rui J. S.. "The Early Phase of ß2-Microglobulin Aggregation: Perspectives From Molecular Simulations". Frontiers in Molecular Biosciences 7 (2020): http://dx.doi.org/10.3389/fmolb.2020.578433.
    Open access • 10.3389/fmolb.2020.578433
  11. Faísca, PFN. Corresponding author: Faísca, PFN. "Knotted proteins: Tie etiquette in structural biology". Contemporary Mathematics (2020): http://dx.doi.org/10.1090/conm/746/15007.
    10.1090/conm/746/15007
  12. Faísca, PFN; Loureiro Rui JS; Machuqueiro, Miguel; Diogo Vila-Viçosa. Corresponding author: Faísca, PFN. "The Early Phase of ß2m Aggregation: An Integrative Computational Study Framed on the D76N Mutant and the DeltaN6 Variant". Biomolecules (2019): http://dx.doi.org/10.3390/biom9080366.
    10.3390/biom9080366
  13. Faísca, PFN; Rui D.M. Travasso. "Interview with Mike Kosterlitz". Europhysics News (2019): http://dx.doi.org/10.1051/epn/201931.
    10.1051/epn/201931
  14. João Especial; Ana Nunes; Antonio Rey; Patrícia FN Faísca. "Hydrophobic confinement modulates thermal stability and assists knotting in the folding of tangled proteins". Physical Chemistry Chemical Physics (2019): https://doi.org/10.1039/C9CP01701A.
    10.1039/C9CP01701A
  15. Rui J. S. Loureiro; Diogo Vila-Viçosa; Miguel Machuqueiro; Eugene I. Shakhnovich; Patricia F. N. Faísca. "A tale of two tails: The importance of unstructured termini in the aggregation pathway of ß2-microglobulin". Proteins: Structure, Function, and Bioinformatics (2017): https://doi.org/10.1002/prot.25358.
    10.1002/prot.25358
  16. Sílvia G. Estácio; Hugo F. M. C. Martiniano; Patrícia F. N. Faísca. "Thermal unfolding simulations of NBD1 domain variants reveal structural motifs associated with the impaired folding of F508del-CFTR". Mol. BioSyst. 12 9 (2016): 2834-2848. https://doi.org/10.1039%2Fc6mb00193a.
    10.1039/c6mb00193a
  17. Miguel A. Soler; Antonio Rey; Patrícia F. N. Faísca. "Steric confinement and enhanced local flexibility assist knotting in simple models of protein folding". Phys. Chem. Chem. Phys. 18 38 (2016): 26391-26403. https://doi.org/10.1039%2Fc6cp05086g.
    10.1039/c6cp05086g
  18. Faísca PF. "Knotted proteins: A tangled tale of Structural Biology.". (2015): http://europepmc.org/abstract/med/26380658.
    10.1016/j.csbj.2015.08.003
  19. Krobath, H.; Rey, A.; Faísca, P.F.N.. "How determinant is N-terminal to C-terminal coupling for protein folding?". Physical Chemistry Chemical Physics 17 5 (2015): 3512-3524. http://www.scopus.com/inward/record.url?eid=2-s2.0-84921695029&partnerID=MN8TOARS.
    10.1039/c4cp05178e
  20. Estácio, S.G.; Leal, S.S.; Cristóvão, J.S.; Faísca, P.F.N.; Gomes, C.M.. "Calcium binding to gatekeeper residues flanking aggregation-prone segments underlies non-fibrillar amyloid traits in superoxide dismutase 1 (SOD1)". Biochimica et Biophysica Acta - Proteins and Proteomics 1854 2 (2015): 118-126. http://www.scopus.com/inward/record.url?eid=2-s2.0-84915749799&partnerID=MN8TOARS.
    10.1016/j.bbapap.2014.11.005
  21. Estácio, Sílvia G.; Krobath, Heinrich; Vila-Viçosa, Diogo; Machuqueiro, Miguel; Shakhnovich, Eugene I.; Faísca, Patrícia F. N.. "A Simulated Intermediate State for Folding and Aggregation Provides Insights into ¿N6 ß2-Microglobulin Amyloidogenic Behavior". PLoS Comput Biol 10 5 (2014): e1003606-e1003606.
    10.1371/journal.pcbi.1003606
  22. Soler, M.A.; Nunes, A.; Faísca, P.F.N.. "Effects of knot type in the folding of topologically complex lattice proteins". Journal of Chemical Physics 141 2 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84904366419&partnerID=MN8TOARS.
    10.1063/1.4886401
  23. Krobath, H.; Shakhnovich, E.I.; Faísca, P.F.N.. "Structural and energetic determinants of co-translational folding". Journal of Chemical Physics 138 21 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84879183007&partnerID=MN8TOARS.
    10.1063/1.4808044
  24. Krobath, H.; Faísca, P.F.N.. "Interplay between native topology and non-native interactions in the folding of tethered proteins". Physical Biology 10 1 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84873377406&partnerID=MN8TOARS.
    10.1088/1478-3975/10/1/016002
  25. Soler, M.A.; Faísca, P.F.N.. "Effects of Knots on Protein Folding Properties". PLoS ONE 8 9 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84883379881&partnerID=MN8TOARS.
    10.1371/journal.pone.0074755
  26. Estácio, S.G.; Shakhnovich, E.I.; Faísca, P.F.N.. "Assessing the effect of loop mutations in the folding space of ß2microglobulin with molecular dynamics simulations". International Journal of Molecular Sciences 14 9 (2013): 17256-17278. http://www.scopus.com/inward/record.url?eid=2-s2.0-84883486569&partnerID=MN8TOARS.
    10.3390/ijms140917256
  27. Krobath, H.; Estacio, S. G.; Faisca, P. F. N.; Shakhnovich, E. I.. "Identification of a Conserved Aggregation-Prone Intermediate State in the Folding Pathways of Spc-SH3 Amyloidogenic Variants". Journal of Molecular Biology 422 5 (2012): 705-722.
    10.1016/j.jmb.2012.06.020
  28. Estácio, S.G.; Fernandes, C.S.; Krobath, H.; Faísca, P.F.N.; Shakhnovich, E.I.. "Robustness of atomistic Go models in predicting native-like folding intermediates". Journal of Chemical Physics 137 8 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84865722488&partnerID=MN8TOARS.
    10.1063/1.4747492
  29. Soler, Miguel A.; Faisca, Patricia F. N.. "How Difficult Is It to Fold a Knotted Protein? In Silico Insights from Surface-Tethered Folding Experiments". Plos One 7 12 (2012):
    10.1371/journal.pone.0052343
  30. 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.
    10.1371/journal.pone.0035599
  31. Faisca, Patricia F. N.; Nunes, Ana; Travasso, Rui D. M.; Shakhnovich, Eugene I.. "Non-native interactions play an effective role in protein folding dynamics". Protein Science 19 11 (2010): 2196-2209.
    10.1002/pro.498
  32. 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.
    10.1063/1.3485286
  33. 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.
    10.1088/1478-3975/7/1/016009
  34. Faísca, P.F.N.. "The nucleation mechanism of protein folding: A survey of computer simulation studies". Journal of Physics Condensed Matter 21 37 (2009): http://www.scopus.com/inward/record.url?eid=2-s2.0-70349584103&partnerID=MN8TOARS.
    10.1088/0953-8984/21/37/373102
  35. Faísca, P.F.N.; Gomes, C.M.. "On the relation between native geometry and conformational plasticity". Biophysical Chemistry 138 3 (2008): 99-106. http://www.scopus.com/inward/record.url?eid=2-s2.0-55549109717&partnerID=MN8TOARS.
    10.1016/j.bpc.2008.09.006
  36. 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
  37. Prosinecki, V.; Faísca, P.F.N.; Gomes, C.M.. "Conformational states and protein stability from a proteomic perspective". Current Proteomics 4 1 (2007): 44-52. http://www.scopus.com/inward/record.url?eid=2-s2.0-34547638393&partnerID=MN8TOARS.
    10.2174/157016407781387375
  38. 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
  39. 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
  40. Faísca, P.F.N.; Estácio, S.. "An interview with sir Harold Kroto". Europhysics News 38 1 (2007): 28-31. http://www.scopus.com/inward/record.url?eid=2-s2.0-34248186491&partnerID=MN8TOARS.
  41. Faísca, P.F.N.; Plaxco, K.W.. "Cooperativity and the origins of rapid, single-exponential kinetics in protein folding". Protein Science 15 7 (2006): 1608-1618. http://www.scopus.com/inward/record.url?eid=2-s2.0-33745698759&partnerID=MN8TOARS.
    10.1110/ps.062180806
  42. Faísca, P.F.N.; Telo Da Gama, M.M.. "Folding of small proteins: A matter of geometry?". Molecular Physics 103 21-23 SPEC (2005): 2903-2910. http://www.scopus.com/inward/record.url?eid=2-s2.0-31744445502&partnerID=MN8TOARS.
    10.1080/00268970500221891
  43. Faísca, P.F.N.; Telo Da Gama, M.M.; Nunes, A.. "The Go model revisited: Native structure and the geometric coupling between local and long-range contacts". Proteins: Structure, Function and Genetics 60 4 (2005): 712-722. http://www.scopus.com/inward/record.url?eid=2-s2.0-24644503109&partnerID=MN8TOARS.
    10.1002/prot.20521
  44. Faisca, P.F.N.; Telo Da Gama, M.M.. "Native geometry and the dynamics of protein folding". Biophysical Chemistry 115 2-3 SPEC. (2005): 169-175. http://www.scopus.com/inward/record.url?eid=2-s2.0-14744273112&partnerID=MN8TOARS.
    10.1016/j.bpc.2004.12.022
  45. Faisca, P.F.N.; Da Gama, M.M.T.; Ball, R.C.. "Folding and form: Insights from lattice simulations". Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 69 5 2 (2004): http://www.scopus.com/inward/record.url?eid=2-s2.0-42749107023&partnerID=MN8TOARS.
  46. Casasayas, J.; Faisca, P.; Nunes, A.. "Melnikov method for parabolic orbits". Nonlinear Differential Equations and Applications 10 1 (2003): 119-131. http://www.scopus.com/inward/record.url?eid=2-s2.0-0141865596&partnerID=MN8TOARS.
    10.1007/s00030-003-1031-4
  47. Faisca, P.F.N.; Ball, R.C.. "Topological complexity, contact order, and protein folding rates". Journal of Chemical Physics 117 18 (2002): 8587-8591. http://www.scopus.com/inward/record.url?eid=2-s2.0-0037044965&partnerID=MN8TOARS.
    10.1063/1.1511509
  48. Faisca, P.F.N.; Ball, R.C.. "Thermodynamic control and dynamical regimes in protein folding". Journal of Chemical Physics 116 16 (2002): 7231-7237. http://www.scopus.com/inward/record.url?eid=2-s2.0-0037156117&partnerID=MN8TOARS.
    10.1063/1.1466833
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2022/06/20 A molecular simulation approach towards establishing the early phase of beta2-microglobulin aggregation (Invited talk) 8th International Iberian Biophysics Congress
(Bilbao, Spain)
2019/12/20 Hydrophobic confinement modulates thermal stability and assists knotting in the folding of tangled proteins (Contributed talk) 7º Encontro de Jovens Investigadores de Biologia Computacional e Estrutural
(Lisboa, Portugal)
2019/11 Hydrophobic confinement modulates thermal stability and assists knotting in the folding of tangled protein (Contributed talk) Eutopia-2: Second meeting of the European Topology interdisciplinary Initiative
(San Sebastian, Spain)
2019/06 Hydrophobic confinement modulates thermal stability and assists knotting in the folding of tangled proteins (Contributed talk) Workshop on Integrative Approaches to Protein Folding and Aggregation
Universidade de Lisboa (Lisboa, Portugal)
2019/05/21 “Esquizofrenia molecular: Quando as proteínas se portam mal...” [Molecular schizophrenia: When proteins misbehave…] (Public lecture) Pint of Science Portugal, Do 8 a0 80: Pequeno em tamanho, grande em importância, Crafty Corner, Lisbon, Portugal
(Lisbon, Portugal)
2018/04 Effects of steric confinement in the folding of knotted proteins (Invited talk) American Mathematical Society Meeting, Special Session on Topology of Biopolymers, Boston, Northeastern University, Boston, MA
American Mathematical Society (Boston, United States)
2014/12 Microscopic insights into the amyloidogenic behavior of beta-2-microglobulin from molecular simulations (Invited talk) EJIBCE 2014, Faculdade de Ciências da Universidade de Lisboa, Lisboa
(Lisbon, Portugal)
2013/05 Intermediate states for folding and aggregation (Invited talk) Biomolecules and Nanostructures 4
(Pultusk, Poland)
2012/05 Identification and structural characterization of a common aggregation-prone intermediate in the folding pathways of spc-SH3 amyloidogenic variants (Contributed talk) ProtStab 2012, 9th International Conference on Protein Stabilization
Instituto Superior Técnico (Lisboa, Portugal)
2012/01 Identification and structural characterization of a common aggregation-prone intermediate in the folding pathways of spc-SH3 amyloidogenic variants (Contributed talk) Gordon Research Seminar, Topics on Protein Folding and Aggregation
Gordon Research Conference, Protein Folding Dynamics (Ventura, United States)
2011/10 Amyloidogenic Mutants of the spc-SH3 protein domain: A Molecular Dynamics Investigation (Contributed talk) SimBioMa Conference on Molecular Simulations in Biosystems and Material Science
University of Konstanz (Konstanz, Germany)
2011/06/08 Amyloidogenic Mutants of the spc-SH3 protein domain: A Molecular Dynamics Investigation (Invited talk) TheoBio 2011
(Funchal , Portugal)
2011/06 Amyloidogenic Mutants of the Spc-SH3 protein domain: A Molecular Dynamics Investigation (Invited talk ) TheoBio 2011
(Funchal, Portugal)
2008/07 Identifying critical residues in protein folding: Insights from phi-value and Pfold analysis (Invited talk) 1st Portuguese Forum on Computational Biology
Instituto Gulbenkian de Ciência (Oeiras, Portugal)
2008/04 Identifying critical residues in protein folding: Insights from phi-value and Pfold analysis (Invited talk) SimBioMa Conference on Molecular Simulations in Biosystems and Material Science
University of Konstanz (Konstanz, Germany)
2007/02 Nucleation phenomena in protein folding: The modulating role of protein sequence (Contributed talk) Workshop Proteins in Health and Disease: From Structure to Function
Universidade de Lisboa (Lisboa)
2007/02 Cooperativity and the origins of rapid, single-exponential kinetics in protein folding (Contributed talk) Workshop Proteins in Health and Disease: From Structure to Function
Universidade de Lisboa (Lisboa)
2006/05 From toy models to real protein folding: How far can we go? (Invited talk) Soft matter and interfaces
Universidade de Lisboa (Lisboa, Portugal)
2005/04 Protein molecules as associative memories, folding performance and optimization (Invited talk) IoP Physics 2005: A Century after Einstein
Institute of Physics, University of Warwick (Warwick, United Kingdom)
2001/10 Thermodynamic control and dynamical regimes in protein folding (Invited talk) IV Gulbenkian Autumn Meeting-Theoretical and Computational Biology
Instituto Gulbenkian de Ciência (Oeiras)
1995/04 Effects of surfactant asymmetry at the water-oil-interface in a model ternary mixture (Invited talk) HCM Workshop on Solubilization and Interfacial Properties of Surfactant Solutions
Universidade de Lisboa (Lisboa, Portugal)

Supervision

Thesis Title
Role 		Degree Subject (Type)
Institution / Organization
2022 - Current In silico insights on the role of protein knots in mechanical stability and self-association
Co-supervisor
 Biochemistry (PhD)
Universidade de Lisboa Faculdade de Ciências, Portugal
2019/03 - 2023/11 Physics and Evolution of Knotted Proteins
Supervisor
 Physics (PhD)
Universidade de Lisboa Faculdade de Ciências, Portugal
2016/01 - 2019/09 Disclosing the aggregation mechanism of beta2-microglobulin in amyloid disease
Supervisor
 Biology (PhD)
Universidade de Lisboa Faculdade de Ciências, Portugal
2017 - 2018 Effects of confinement in the folding of knotted proteins
Supervisor
 Physics (Master)
Universidade de Lisboa Faculdade de Ciências, Portugal

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2021/02/15 - 2021/02/17 Third Meeting of the European Interdisciplinary Action EUTOPIA Faculty of Sciences, University of Lisbon (https://eutopia3.campus.ciencias.ulisboa.pt) (2021/02/15 - 2021/02/17)
Conference (Co-organisor)
 Universidade de Lisboa Faculdade de Ciências, Portugal
2019/06/11 - 2019/06/12 Integrative Approaches to Protein Folding & Aggregation (http://folding2019.campus.ciencias.ulisboa.pt) (2019/06/11 - 2019/06/12)
Workshop (Co-organisor)
 Universidade de Lisboa Faculdade de Ciências, Portugal
2012/05/25 - 2012/10/19 Ciência na UL - Science Public Lecture Series: Proteins, Life's origamis. (2012/05 - 2012/05)
Other (Co-organisor)
 Universidade de Lisboa Faculdade de Ciências, Portugal
2011/05/20 - 2011/05/21 Física iLimitada. Funded by Fundação para a Ciência e a Tecnologia (FAAC program). (2011/05/20 - 2011/05/21)
Workshop (Co-organisor)
 Universidade de Lisboa Faculdade de Ciências, Portugal
2008/10/02 - 2008/10/03 Physics of Biological Systems: From Genes to Societies. Funded by Fundação para a Ciência e a Tecnologia (FAAC program) (2008/10/02 - 2008/10/03)
Workshop (Co-organisor)
 Universidade de Lisboa Faculdade de Ciências, Portugal
2006/11/08 - 2006/11/08 A One-Day workshop in Protein Science. (2006/11/08 - 2006/11/08)
Workshop (President of the Organising Committee)
 Universidade de Lisboa Faculdade de Ciências, Portugal

Jury of academic degree

Topic
Role 		Candidate name (Type of degree)
Institution / Organization
2022/07/26 Improvement of methods for the structural characterisation of drug metabolites based on collisional cross sections
(Thesis) Main arguer
 Dmytro Ivashchenko (PhD)
Universidade do Porto, Portugal
2019/10/14 Bending rigidity, supercoiling and knotting of ring polymers: models and simulations
(Thesis) Main arguer
 Lucia Coronel (PhD)
Scuola Internazionale Superiore di Studi Avanzati Sezione Matematica, Italy
2018/03/29 Disorder Dynamic in the cell: Protein unfolding, molecular crowding and their combined action in intracellular aqueous two-phase systems formation
(Thesis) Main arguer
 Sara da Silva Ribeiro (Master)
Universidade do Minho Departamento de Química, Portugal
2015/11/17 Agregação e formação de amilóides por proteínas neuroinflamatórias S100A8 e S100A9 e implicações em processos neurodegenerativos
(Thesis) Main arguer
 Adriana dos Santos Falcão (Master)
Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal
2015 The Universe of Neurotoxic Proteins: Statistical Study of the Conformational Space of Polyglutamine and ß-amyloid
Thesis Member
 Àngel Gómez-Sicilia (PhD)
Universidad Autónoma de Madrid, Spain
2014/09/26 Protein fold switching in coarse grained models
(Thesis) Main arguer
 Christian Holzgräfe (PhD)
Lund Universitet Institutionen för astronomi och teoretisk fysik, Sweden
2013/12/10 Dynamics and steady-state properties of adaptive networks
Thesis Member
 Stefan Wieland (PhD)
Universidade de Lisboa Faculdade de Ciências, Portugal
2013/11/07 Synchronization phenomena with nonlinear oscillators
(Thesis) Main arguer
 José Manuel Macedo Cota Barros (Master)
Universidade de Lisboa Faculdade de Ciências, Portugal
2013/06/03 Intrinsically disordered and aggregation prone regions underlie ß-aggregation in S100 proteins
(Thesis) Main arguer
 Sofia Baptista de Carvalho (Other)
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
2009/09/21 Phase field models for tumor growth in the avascular phase
(Thesis) Main arguer
 Susana Patrícia Lopes da Silva (Master)
Universidade de Coimbra Departamento de Física, Portugal

Ad Hoc journal article review

Journal title (ISSN) Publisher
2022 - Current Langmuir American Chemical Society
2022 - Current Biomedicines MDPI
2022 - Current Frontiers in Molecular Biosciences The Holtzbrinck Publishing Group
2020 - Current Proceedings of the Royal Society of London Series A Containing Papers of a Mathematical and Physical Character (2053-9150) The Royal Society
2020 - Current Israel Journal of Chemistry Wiley
2020 - Current Biology (ISSN 2079-7737) MDPI
2020 - Current Cells (2073-4409) MDPI
2019 - Current Macromolecules (1520-5835) American Chemical Society
2019 - Current Physical Review Research (2643-1564) American Physical Society
2018 - Current The European Physical Journal E (1292-895X) Springer-Verlag
2018 - Current Nature Communications (2041-1723) Springer Science and Business Media LLC
2017 - Current Physical Review E American Physical Society
2017 - Current Molecules (1420-3049) MDPI AG
2017 - Current Computational Biology and Chemistry (1476-9271) Elsevier
2017 - Current Biochimica et Biophysica Acta (BBA) - Biomembranes (0005-2736) Elsevier
2016 - Current International Journal of Biological Macromolecules (0141-8130) Elsevier
2016 - Current RCS Advances Royal Society of Chemistry
2016 - Current Journal of Molecular Graphics and Modelling Elsevier
2016 - Current Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics (1570-9639) Elsevier
2015 - Current Physical Review Letters (1079-7114) American Physical Society
2015 - Current Biophysical Journal (1542-0086) Elsevier
2015 - Current Materials Discovery (2352-9245) Elsevier
2014 - Current European Biophysics Journal (1432-1017) Springer-Verlag
2014 - Current Scientific Reports (2045-2322) Springer Science and Business Media LLC
2014 - Current Bio-Algorithms and Med-Systems De Gruyter
2013 - Current International Journal of Molecular Sciences (1422-0067) MDPI AG
2013 - Current PLoS ONE (1932-6203) Public Library of Science
2013 - Current Biochemistry ( 1520-4995) American Chemical Society
2013 - Current Structure Cell Press
2013 - Current Biomolecules (2218-273X) MDPI AG
2012 - Current EPL (Europhysics Letters) (1286-4854) IOP Publishing - Europhysics Letters
2011 - Current Entropy (1099-4300) MDPI AG
2007 - Current Journal of the American Chemical Society (1520-5126) American Chemical Society
2006 - Current PLoS Computational Biology (1553-7358) Public Library of Science
2005 - Current Proteins Structure Function and Bioinformatics (1097-0134) Wiley (John Wiley & Sons)
2004 - Current The Journal of Physical Chemistry A (1520-5215) American Chemical Society
2003 - Current Biophysical Chemistry (0301-4622) Elsevier
2002 - Current The Journal of Chemical Physics (1089-7690) American Institute of Physics

Committee member

Activity description
Role 		Institution / Organization
2018 - 2022 EU Framework COST European topology interdisciplinary action (EUTOPIA) COST Action CA17139. Member of the management committee and leader of working group 3: Tangled and Self-Entangled Proteins
Member
 COST (European Cooperation in Science and Technology) , Belgium
2015 - 2018 EU Framework COST Non-globular proteins - from sequence to structure, function, and application in molecular physiopathology (NGP-NET) COST Action BM1405. Member of the management committee COST (European Cooperation in Science and Technology) , Belgium
2009 - 2012 Division of Physics of Life Sciences of the European Physical Society. Executive committee member.
Member
 European Physical Society, France
2006 - 2011 European Science Foundation program SimBioMa: Molecular Simulations in Biosystems and Material Science. Steering committee member.
Member
 European Physical Society, France

Consulting

Activity description Institution / Organization
2018/03/20 - Current Provided advice on a book proposal for the Physical Sciences list at Oxford University Press . Oxford University Press, United Kingdom

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2019/09 - 2024/02 Termodinâmica e Teoria Cinética (Thermodynamics and kinetic theory). Licenciatura em Física e licenciatura em Engenharia Física, e licencistura em Engenharia Biomédica e Biofísica (degree in Physics, degree in Physics Engineering and degree in Biophysics and Biomedical Engineering). 180 students enrolled. Course coordination. Theory (3h/w; 180 students) and practical classes (3.0h/w; 100 students) Physics (Licenciatura) Universidade de Lisboa Faculdade de Ciências, Portugal
2021 - 2024 Biomecânica (Biomechanics). Licenciatura em Engenharia Biomédica e Biofísica (First Degree in Biomedical and Biophysics Engineering). 40 students enrolled. Course coordination. Theory (3h/w; 40 students) and practical classes (1.5h/w; 40 students) Ciências da Engenharia - Engenharia Biomédica e Biofísica (Licenciatura) Universidade de Lisboa, Faculdade de Ciências, Portugal
2021 - 2024 Física Experimental III (Experimental Physics III). Licenciatura em Física (First Degree in Physics). Laboratory classes (4h/w; 15 students). Physics (Licenciatura) Universidade de Lisboa, Faculdade de Ciências, Portugal
2020/01/24 - 2020/01/24 Lecture Proteins: From all atom simulations to coarse-grained models; 4 hour theory + 4 hour practical class) Winter Scholl on the Physics of the Cell (Gest Lecturer) Physics Università degli Studi di Trento Dipartimento di Fisica, Italy
2019/02 - 2019/07 Transições de Fase (Phase Transitions). 8 students enrolled. Mestrado em Física. Course coordination. Theory (2h/w; 8 students) and practical classes (2h/w; 8 students) Physics (Mestrado) Universidade de Lisboa Faculdade de Ciências, Portugal
2014/02 - 2019/07 Física Geral (General Physics). 170 students enrolled. Licenciaturas em Bioquímica, Química e Química Tecnológica. Course coordination. Theory (3h/w; 190 students) and practical classes (4h/w; 51 students) Chemistry and Biochemistry (Licenciatura) Universidade de Lisboa Faculdade de Ciências, Portugal
2014/11 - 2019/02 Termodinâmica e Teoria Cinética (Thermodynamics and kinetic theory). Licenciatura em Física e Mestrado Integrado em Engenharia Física (Degree in Physics and Integrated Masters in Physics Engineering). 70 students enrolled. Course coordination. Theory (3h/w; 70 students) and practical classes (1.5h/w; 70 students) Physics (Licenciatura) Universidade de Lisboa Faculdade de Ciências, Portugal
2014/09 - 2019/02 Termodinâmica e Teoria Cinética A (Thermodynamics and kinetic theory A). Mestrado Integrado em Engenharia Biomédica e Biofísica (Integrated Masters in Biomedical and Biophysics Engineering). 41 students enrolled. Course coordination. Theory (3h/w; 41 students) and practical classes (1.5h/w; 41 students) Biomedical and Biophysics Engineering (Mestrado integrado) Universidade de Lisboa Faculdade de Ciências, Portugal
2016/09 - 2018/02 Criticalidade e sistemas complexos (Criticality and complex systems). 9 students enrolled. Mestrado em Física. Theory (2h/w; 9 students) and practical classes (2h/w; 9 students) Physics (Mestrado) Universidade de Lisboa Faculdade de Farmácia Biblioteca, Portugal
2011/09 - 2015/02 Física Estatística Complementar (Complementary Statistical Physics). 5 students enrolled. Mestrado em Física. Course coordination. Theory (2h/w; 5 students) and practical classes (2h/w; 5 students) Physics (Mestrado) Universidade de Lisboa Faculdade de Ciências, Portugal
2009/02 - 2009/07 Física Computacional (Computational Physics). 20 students enrolled. Licenciatura em Física. Course coordination. Theory (2h/w; 20 students) and laboratory (2h/w; 20 students) Physics (Licenciatura) Universidade de Lisboa Faculdade de Ciências, Portugal

Journal scientific committee

Journal title (ISSN) Publisher
2022 - Current Frontiers in Molecular Biosciences (2296-889X)

Mentoring / Tutoring

Topic Student name
2019 - 2021 Postdoc supervisor of Dr. Jules Morand Jules Morand
2019/09 - 2019/12 BI Supervisor Rodrigo José Santo
2014 - 2014 BI supervisor of Emiliano Pinto Emiliano Pinto
2014 - 2014 BI supervisor of Cláudio Alexandre Piedade Cláudio Alexandre Piedade
2012 - 2014 Postdoc supervisor of Dr. Silvia Estácio Sílvia Estácio
2011 - 2013 Postdoc supervisor of Dr. Heinrich Krobath Heinrich Krobath
2011 - 2013 Postdoc supervisor of Dr. Miguel Angel Soler Miguel Angel Soler
2011 - 2011 BI supervisor of Catarina Fernandes (MSc) Catarina Fernandes
2006 - 2008 Post-doc supervisor of Dr. Rui DM Travasso Rui DM Travasso

Other jury / evaluation

Activity description Institution / Organization
2022 - 2022 Grant review for National Science Centre, Poland National Science Centre, Poland, Poland
2021 - 2021 Grant review for European Science Foundation, Research Foundation Flanders (FWO) (Belgium) Research Foundation Flanders (FWO) , Belgium
2020 - 2020 Grant review for Ministero dell'Istruzionedell'Università e della Ricerca (MIUR), Programma per Giovani Ricercatori "Rita Levi Montalcini" 2018, (Italy) Ministero dell'Istruzione dell'Università e della Ricerca, Italy
2019 - 2019 Grant review for European Science Foundation, University of Bordeaux Excellence Initiative (IdEx Bordeaux) Junior Chair Programme (France) European Science Foundation, France
2019 - 2019 Post-doctoral fellowship review for European Science Foundation, Research Foundation Flanders (FWO), Belgium European Science Foundation, France
2018 - 2018 Grant review for Ministero dell'Istruzionedell'Università e della Ricerca (MIUR), Programma per Giovani Ricercatori "Rita Levi Montalcini" 2017, (Italy) Ministero dell'Istruzione dell'Università e della Ricerca, Italy
2017 - 2017 Grant review for Irish Research Council, Laureate Awards Programme, IRCLA, (Ireland) Irish Research Council, Ireland
2017 - 2017 Grant evaluation for National Science Center, Funding scheme OPUS (Poland) Narodowe Centrum Nauki, Poland
2016 - 2016 Grant review for the Agence Nationale de la Recherche (ANR), France Agence nationale de la recherche, France
2015 - 2015 Grant review for European Research Council (ERC), ERC Starting Grant Call European Research Council, Belgium
2013 - 2013 Grant evaluation for the Fundação para a Ciência e a Tecnologia (FCT), FCT-I Researcher 2013 Call, Portugal Fundação para a Ciência e a Tecnologia, Portugal
2004 - 2005 Grant review for Agência Nacional de Promoción Cientifíca e Tecnológica (ANPCyT) (Argentina) Agencia Nacional De Promoción Científica Y Tecnológica, Argentina
Distinctions

Other distinction

2011 Best Poster Prize
2001 IOP Meeting Prize for Best Poster