{"id":1373,"date":"2023-09-22T09:02:44","date_gmt":"2023-09-22T12:02:44","guid":{"rendered":"https:\/\/wp.ufpel.edu.br\/bordin\/?page_id=1373"},"modified":"2026-04-01T04:40:36","modified_gmt":"2026-04-01T07:40:36","slug":"articles","status":"publish","type":"page","link":"https:\/\/wp.ufpel.edu.br\/bordin\/publications\/articles\/","title":{"rendered":"Articles & Preprints"},"content":{"rendered":"
\n

Submitted\/Preprint<\/h2>\n

72 – Intrinsic Disorder as a Biomimetic Design Paradigm. T. Puccinelli and J. R. Bordin. Submitted.<\/span><\/p>\n

71 – Molecular Dynamics Study of Water Anomalies: A comparison of OPC3 and TIP4P\/\u03b5 models. V. dos S. Nascimento, R. M. S. Ferreira, M. C. Barbosa and J. R. Bordin. Submitted.<\/span><\/p>\n

70 – <\/span>The Physics of Getting Elected: Financial Dynamics in Local Council Elections in Brazil<\/a>. A. S. Marques, A. P. dos Santos, R. C. da Rosa <\/span>and J. R. Bordin. Submitted.<\/span><\/p>\n

69 – 3D-Graphene Nanomaterials for Efficient Removal of SARS-CoV-2 from Water. P. C. C. da Rosa, M. B. Le\u00e3o, V. S. Barboza, N. L. Bandeira, J. G. Luhring, J. R. Bordin, R. A. Vaucher and C. F. M. Jauris. Submitted.\u00a0<\/span><\/p>\n<\/div>\n

2026<\/strong><\/h2>\n

69 – Preface to the JPCM Focus Issue on Soft Condensed Matter Physics in the Global South: Emerging Directions in Complex Systems. J. R. Bordin. Accepted in Journal of Physics: Condensed Matter (2026).<\/span><\/p>\n

67 – Confinement-controlled chase\u2013escape dynamics<\/a>. R. G. Rossatto, H. A. Alvarez, C. M. Carlevaro, J. R. Bordin. Physica A 692, 131524 (2026).<\/span><\/p>\n

66 – Molecular Bioengineering: Computational Tools, Smart Materials, and Therapeutic Systems<\/a>. J. R. Bordin and P. S. Stayton. <\/span>Molecular Systems Design and Engineering 11, 242-243 (2026).<\/span><\/p>\n

65 – A Molecular Dynamics Study of PIM2 Lipid Bilayer Membranes<\/a>. Y. Paes, J. Scaini, V. Lima, A. Werlhi, P. E. A. da Silva, J. R. Bordin and K. dos Santos Machado.\u00a0 Journal of Molecular Graphics and Modelling 144, 109284 (2026).<\/span><\/p>\n

2025<\/strong><\/h2>\n

64 – Competing Length Scales and Symmetry Frustration Govern Non-Universal Melting in 2D Core-softened Colloidal Crystals<\/a>. T. Puccinelli, A. V. Ilha and J. R. Bordin. Physical Review E 112, 055415 (2025).<\/span><\/p>\n

63 – How does flexibility shape anomalies in core-softened dimeric fluids<\/a>? L. B. Krott, T. Puccinelli, D. F. K. Silva and J. R. Bordin. Journal of Chemical Physics 163, 174908 (2025).<\/span><\/p>\n

62 – How Soft is Too Soft? Tuning Order and Disorder in Dimeric Core-Soft Colloids with Bond Flexibility<\/a>. L. B. Krott, D. F. K. Silva, A. de J. R\u00edos-Rold\u00e1n, V. M. Trejos, J. A. Moreno-Razo and J. R. Bordin. Journal of Physics: Condensed Matter 37, 445101 (2025).<\/span><\/p>\n

61 – Order-Disorder Transitions and Thermal Pathways in Frustrated 2D Colloidal Crystals<\/a>.<\/span> A. V. Ilha,T. Puccinelli and J. R. Bordin. Brazilian Journal of Physics 55, 281 (2025).<\/span><\/p>\n

\n

60 – COVID-19 in Southern Brazil: Public Health Management and Regional Impacts<\/a>. A. S. Marques, W. S. Oliveira and J. R. Bordin.\u00a0 Anal of the Brazilian Academy of Sciences 97 (suppl 2), e20241135 (2025).<\/span><\/p>\n

59 – Understanding the Effect of Reagent Addition Sequence on the Structure and Properties of 3D-Reduced Graphene Oxide with Silver Nanoparticles for Electrochemical Sensing Applications<\/a>. P. C. C. da Rosa, A. E. Silva, E. G. C. Neiva, J. R. Bordin, and C. F. de M. Jauris. ACS Omega 16<\/span>, 16090\u201316101<\/span> (2025).<\/span><\/p>\n

58 – Interfacial Behavior of Janus Nanorods: A DPD Study on Water-Oil Systems and Nanoconfinement<\/a>. A. P. dos Santos, C. F. de M. Jauris and J. R. Bordin. Water 17, 1128 (2025).<\/span><\/p>\n

57 – Dielectric properties of water inside charged nanoslits: a comparison of rigid and flexible three site models.<\/a> R. Fuentes-Azcatl, <\/span>J. R. Bordin and M. C. Barbosa. Journal of Molecular Liquids 427, 127385 (2025).<\/span><\/span><\/p>\n

56 – Exploring the thermodynamics and dynamics of CO2 with rigid models<\/a>. L. A. Pinheiro, W. S. Oliveira, E. E. de Moraes and J. R. Bordin. Processes 13,\u00a0148 (2025).<\/span><\/p>\n

55 – Computational Condensed Matter Science Contributions to Addressing Water Emerging Contaminant Pollution: A Comprehensive Review<\/a>. J. R. Bordin, C. F. de M. Jauris, P. R. B. C\u00f4rtes, W. S. Ara\u00fajo, L. S. Moreira, A. P. dos Santos, M. B. Le\u00e3o, E. E. Moraes, M. J. Piotrowski and M. H. K\u00f6hler. Journal of Physics: Condensed Matter 37, 113004. (2025)<\/span><\/p>\n

54 – <\/span>Nanoscale Water Behavior and Its Impact on Adsorption: A case study with CNTs and Diclofenac<\/a>. <\/span>P. R. B. C\u00f4<\/span>rtes,<\/span>\u00a0<\/span>N.<\/span>\u00a0A. Loubet,<\/span>\u00a0<\/span>C. A. Men\u00e9<\/span>ndez,<\/span>\u00a0<\/span>G. A. <\/span>Appignanesi,<\/span>\u00a0<\/span>M. H. K\u00f6<\/span>hler,<\/span>\u00a0<\/span>and J. <\/span>R. Bordin<\/span>. Journal of Chemical Physics 162, 034701 (2025).<\/span><\/p>\n<\/div>\n

\n

2024<\/strong><\/h2>\n

53 – O pacote LAMMPS como uma ferramenta para o ensino de transi\u00e7\u00e3o de fases<\/a> (The LAMMPS package as a tool for teaching phase transitions)<\/span>. T. Puccinelli, M. S. Marques and J. R. Bordin. Revista Brasileira de Ensino de F\u00edsica 46, e20230336 (2024).<\/span><\/p>\n

52 – Quantum Simulations and Experimental Insights into Glyphosate Adsorption Using Graphene-Based Nanomaterials<\/a>. W. S. Ara\u00fajo, C. R. C. R\u00eago, D. Guedes-Sobrinho, A. C. Dias, I. R. do Couto, J. R. Bordin, C. F. de Matos, and M. J. Piotrowski. ACS Applied Materials & Interfaces 16, 31500-31512 (2024).<\/span><\/p>\n

51 – Core-Softened colloids under extreme geometrical confinement<\/a>. L. B. Krott, T. Puccinelli and J. R. Bordin. Soft Matter 20, 4681 – 4691 (2024). Part of the themed collection: Soft Matter Emerging Investigators Series.<\/a><\/span><\/p>\n

50 – TrajPy: empowering feature engineering for trajectory analysis across all domains<\/a>. M. Moreira-Soares, E. Mossmann,\u00a0 R. D. M. Travasso and J. R. Bordin. Bioinformatics Advances 4, vbae026 (2024).
\n<\/span><\/p>\n

49 – Molecular Modeling of Aquaporins and Artificial Transmembrane Channels: a mini-review and perspective for plants<\/a>.<\/sub>J. R. Bordin, A. V. Ilha, P. R. <\/span>B. C\u00f4<\/span>rtes<\/span>, W. S. Oliveira<\/span>, L. A. <\/span>Pinheiro<\/span>, E. E. de Moraes<\/span>, T. G. Grison<\/span> and M. H. K\u00f6<\/span>hler. Theoretical and Experimental Plant Physiology 36, 619\u2013634 (2024).\u00a0<\/span><\/span><\/p>\n

2023<\/strong><\/h2>\n


\n48 – The ECM and tissue architecture are major determinants of early invasion mediated by E-cadherin dysfunction<\/a>. S. Melo<\/span>, P. Guerrero<\/span>, M.<\/span> Moreira-<\/span>Soares<\/span>, J.<\/span> R. Bordin<\/span>, F.<\/span> Carneiro<\/span>, P. <\/span>Carneiro<\/span>, M. B. Dias<\/span>, J.<\/span> Carvalho<\/span>, J. <\/span>Figueiredo<\/span>, R. Seruca<\/span> and R. D. M. <\/span>Travasso. Communications Biology 6, 1131 (2023).<\/span>
\n<\/span><\/p>\n

47-\u00a0 Evidence of caged to normal diffusion transition in benzene along supercritical isobars: insights from molecular dynamics simulations<\/a>. W. S. Oliveira<\/span>, E. E. de Moraes, T. P. O. Nogueira, D. A. Sales and J. R. Bordin.\u00a0 The Journal of Supercritical Fluids 203, 106094 (2023).
\n<\/span><\/p>\n

46 – A DPD model of soft spheres with waterlike anomalies and poly(a)morphism<\/a>. J. R. Bordin. Soft Matter 19, 7613-7624 (2023).
\n<\/span><\/p>\n

45 – Stripes polymorphism and water-like anomaly in hard core-soft corona dumbbells<\/a>. T. P. O. Nogueira and J. R. Bordin. Journal of Molecular Liquids 390, 123127. (2023).<\/span><\/p>\n

44 – How dimensionality affects the structural anomaly in a core-softened colloid<\/a>. L. B. Krott and J. R. Bordin . Colloids & Interfaces 7, 33 (2023).
\n<\/span><\/p>\n

43 – Solid-amorphous transition is related to the waterlike anomalies in a fluid without liquid-liquid phase transition<\/a>. J. R. Bordin and L. B. Krott. The Journal of Chemical Physics 158, 134501 (2023). Editor’s Pick and 2023 JCP Emerging Investigators Special Collection.<\/a>
\n<\/span><\/p>\n

42 – Combining multi-scale simulations and experiments to unveil the adsorption of blue methylene in graphene tridimensional based materials<\/a>. M. B. Le\u00e3o, L F. O. Vendrame, S. B. Fagan, I. Z. da Silva, I. M. Jauris\u00a0 J. R. Bordin and C. F. de Matos. Molecular Systems Design and Engineering 8, 666 (2023).<\/span><\/p>\n

41 – Specific surface area versus adsorptive capacity: an application view of 3D graphene-based materials for the removal of emerging water pollutants<\/a>. M. B. Lea\u0303o, J. R. Bordin and C. F. de Matos. Water, Air, & Soil Pollution 236, 136. (2023).<\/span>
\n<\/span><\/span><\/p>\n

2022<\/strong><\/h2>\n

40 – 2D Patterns in core-softened systems: from sphere to dumbbell colloids<\/a><\/span>. T. P. O. Nogueira and J. R. Bo<\/span>rdin. Physica A, 605, 128048 (2022).<\/span><\/span><\/p>\n

39 – Relativistic Dilation and Contraction of the Probabilities of Quantum States of Light at Angular Incidence<\/a>. D. S. Cardoso and J. R. Bordin.\u00a0 Optik, 267,\u00a0 169712 (2022).<\/span><\/p>\n

38 – Classical-Relativistic variability of the inertia of photon displacement mass in the matter and the specific vacuum<\/a>. D. S. Cardoso and J. R. Bordin.\u00a0 Optik, 260,\u00a0 169081 (2022).<\/span><\/p>\n

37 – Phase classification using neural networks: application to supercooled polymorphic core-softened mixtures<\/a>. V. F. Hernandes, M. S. Marques and J. R. Bordin.\u00a0 Journal of Physics: Condensed Matter, 34, 024002 (2022).
\n<\/span><\/p>\n

2021<\/strong><\/h2>\n

36 – Structure and dynamics of nanoconfined water and aqueous solutions<\/a>. H. R. Corti, G. Appignanesi, M. Barbosa, J. R. Bordin, C. Calero, G. Camisasca, M. D. Elola, G. Franzese, P. Gallo, A. Hassanali, K. Huang, D. Laria, C. Men\u00e9ndez, J. M. de Oca, M. P. Longinotti, J. Rodriguez, M. Rovere, D. Scherlis and I. Szleifer.\u00a0 The European Physical Journal E 44, 136 (2021).<\/span><\/p>\n

35 – Hard core-soft shell particles near repulsive interfaces: interplay between adsorption, aggregation and diffusion<\/a>. M. S. Marques and J. R. Bordin.\u00a0 Journal of Colloid and Interface Science Open, 4, 100029 (2021).<\/span><\/p>\n

34 – Core-softened water-alcohol mixtures: the solute-size effects<\/a>. M. S. Marques, V. F. Hernandes and J. R. Bordin.\u00a0 Physical Chemistry Chemical Physics, 23, 16213-16223 (2021).<\/span><\/p>\n

33 – Structural behavior of a two length scale core-softened fluid in two dimensions<\/a>.\u00a0 D. S. Cardoso, V. F. Hernandes, T. P. O. Nogueira and J. R. Bordin.\u00a0 Physica A, 566, 125628 (2021).<\/span><\/p>\n

2020<\/strong><\/h2>\n
\n

32- Competing interactions near the liquid-liquid phase transition of core-softened water\/methanol mixtures<\/a>. M. S. Marques, V. F. Hernandes, E. Lomba and J. R. Bordin.\u00a0 Journal of Molecular Liquids, 320, 114420 (2020).<\/span><\/p>\n

31 – Tracer diffusion in crowded solutions of sticky polymers<\/a>.\u00a0 T. P. O. Nogueira, H. O. Frota, F. Piazza and J. R. Bordin. Physical Review E 102, 032618 (2020).<\/span><\/p>\n

30 – A description of the formation and growth processes of CaTiO3<\/sub> mesocrystals: A joint experimental and theoretical approach<\/a>. M. L. Moreira, J. R. Bordin, J. M. Andr\u00e9s, J. A. Varela and E. Longo.\u00a0 Molecular Systems Desing & Engineering, 5, 1255 – 1266 (2020).<\/span><\/p>\n

29 – Salt parameterization can drastically affect the results from classical atomistic simulations of water desalination by MoS2<\/sub>\u00a0nanopores<\/a>. J. P. K. Abal, J. R. Bordin and M. C. Barbosa. Physical Chemistry Chemical Physics 22, 11053-11061 (2020).<\/span>
\n*Correction: Salt parameterization can drastically affect the results from classical atomistic simulations of water desalination by MoS2<\/sub>\u00a0nanopores<\/a>. J. P. K. Abal, J. R. Bordin and M. C. Barbosa. Physical Chemistry Chemical Physics, 22, 26025<\/span> (2020).<\/span><\/p>\n

28 – Adhesion modulates cell morphology and migration within dense fibrous networks<\/a>. M. Moreira-Soares, Susana Pinto-Cunha, J. R. Bordin and R. D. M. Travasso. Journal of Physics: Condensed Matter, 32, 314001 (2020). <\/span><\/p>\n

27 – Waterlike anomalies in hard core-soft shell nanoparticles using a effective potential approach: pinned vs adsorbed polymers<\/a>. M. S. Marques, T. P. O. Nogueira, R. F. Dillenburg, M. C. Barbosa and J. R. Bordin. Journal of Applied Physics 127, 054701 (2020).\u00a0<\/span><\/p>\n

2019<\/strong><\/h2>\n

26 – Distinct self-assembly aggregation patterns of nanorods with decorated ends: a simple model study<\/a>. J. R. Bordin. Fluid Phase Equilibria 499, 112251 (2019).<\/span><\/p>\n

25 – Water in nanotubes: the surface effect.<\/a> M. H. K\u00f6hler,\u00a0 J. R. Bordin, C. F. de Matos and M. C. Barbosa.\u00a0 Chemical Engineering Science 203, 54-67. (2019).<\/span><\/p>\n

24 – CO2<\/sub> and SO2<\/sub> pressure-driven adsorption by 3D graphene nanoslits: a molecular dynamics study<\/a>. A. C. Borges, M. H. K\u00f6hler, and J. R. Bordin. Journal of Nanomaterials, 2019, Article ID 9594816. (2019).<\/span><\/p>\n

23 – Ion Flocculation in Water: From Bulk to Nanoporous Membrane Desalination<\/a>. M. H. K\u00f6hler,\u00a0 J. R. Bordin and M. C. Barbosa.\u00a0 Jounal of Molecular Liquids 277, 516-521 (2019).<\/span><\/p>\n

2018<\/strong><\/h2>\n

22 – Surface, density and temperature effects on the water diffusion and structure inside narrow nanotubes.<\/a> M. H. K\u00f6hler and\u00a0 J. R. Bordin. The Journal of Physical Chemistry C 122, 6684\u20136690 (2018).<\/span><\/p>\n

21 – 2D nanoporous membrane for cation removal from water: effects of ionic valence, membrane hydrophobicity and pore size<\/a>. M. H. K\u00f6hler,\u00a0 J. R. Bordin and M. C. Barbosa. The Journal of Chemical Physics 148, 222804 (2018).<\/span><\/p>\n

20 – Waterlike anomalies in a 2D core-softened potential<\/a>. J. R. Bordin and M. C. Barbosa.\u00a0 Physical Review E 97, 022604 (2018).<\/span><\/p>\n

19 – Distinct aggregation patterns and fluid porous phase in a 2D model for colloids with competitive interactions<\/a>. J. R. Bordin. Physica A, 495, 215-224 (2018).<\/span><\/p>\n

18 – Structure and dynamics of water inside hydrophobic and hydrophilic nanotubes<\/a>. M. H. K\u00f6hler,\u00a0 J. R. Bordin, L. B. da Silva and M. C. Barbosa. Physica A 490, 331-337 (2018).<\/span><\/p>\n

2017<\/strong><\/h2>\n

17 – Breakdown of the Stokes-Einstein water transport through narrow hydrophobic nanotubes<\/a>. M. H. K\u00f6hler,\u00a0 J. R. Bordin, L. B. da Silva and M. C. Barbosa. \u00a0 Physical Chemistry Chemical Physics\u00a0 19, 12921-12927 (2017).<\/span><\/p>\n

16 – How Competitive Interactions Affect the Self-Assembly of Confined Janus Nanoparticles<\/a>.\u00a0 J. R. Bordin and L. B. Krott.\u00a0 The Journal of Physical Chemistry B 121, 4308\u20134317 (2017).<\/span><\/p>\n

15 – Flow and structure of fluids in functionalized nanopores.<\/a> J. R. Bordin and M. C. Barbosa. Physica A 467, 137-147 (2017).<\/span><\/p>\n

2016<\/strong><\/h2>\n

14 – Anomalous diffusion and diffusion anomaly in confined Janus dumbbells.<\/a> L. B. Krott, C. Gavazonni and J. R. Bordin. The Journal of Chemical Physics 145, 244906 (2016).<\/span><\/p>\n

13 – Confinement effects on the properties of Janus dimers<\/a>.\u00a0 J. R. Bordin and L. B. Krott. \u00a0 Physical Chemistry Chemical Physics 18, 28740-28746 (2016).<\/span><\/p>\n

12 – Static polarizability effects on counterion distributions near\u00a0 charged surfaces: a coarse-grained Molecular Dynamics study\u00a0 employing the Drude model. <\/a>J. R. Bordin, R. Podgornik and C. Holm. European Physical Journal Special Topics.\u00a0 225, 1693-1705 (2016).<\/span><\/p>\n

11 – Waterlike Features, Liquid-Crystal Phase and Self-Assembly in Janus Dumbbells<\/a>. J. R. Bordin. Physica A, 459, 1-8. (2016).<\/span><\/p>\n

2015<\/strong><\/h2>\n

10 – Self-assembly and Waterlike Anomalies in Janus Nanoparticles<\/a>. J. R. Bordin, L. B. Krott and M. C. Barbosa. Langmuir, 31, 8577-8582. (2015).<\/span><\/p>\n

9 – Effects of confinement on anomalies and phase transitions of core-softened fluids<\/a>. L. B. Krott, J. R. Bordin, N. M. Barraz Jr and M. C. Barbosa. The Journal of Chemical Physics, 142, 134502 (2015).<\/span><\/p>\n

8 – New structural anomaly induced by nanoconfinement<\/a>. L. B. Krott, J. R. Bordin and M. C. Barbosa. The Journal of Physical Chemistry B, 119,\u00a0 291-300 (2015).<\/span><\/p>\n

2014<\/strong><\/h2>\n

7 – High pressure induced phase transition and superdiffusion in anomalous fluid confined in flexible nanopores<\/a>. J. R. Bordin, L. B. Krott and M. C. Barbosa. The Journal of Chemical Physics 141, 144502 (2014).<\/span><\/p>\n

6 – Enhanced flow of core-softened fluids through narrow nanotubes<\/a>. J. R. Bordin, J. S. Soares Jr., A. Diehl and M. C. Barbosa. The Journal of Chemical Physics 140, 194504 (2014).<\/span><\/p>\n

5 – Surface Phase Transition in Anomalous Fluid in Nanoconfinement<\/a>. J. R. Bordin, L. B. Krott and M. C. Barbosa. The Journal of Physical Chemistry C. 118, 9497\u20139506 (2014).<\/span><\/p>\n

2013<\/strong><\/h2>\n

4 – Distinct dynamical and structural properties of a core-softened fluid when confined between fluctuating and fixed walls<\/a>. L. B. Krott and J. R. Bordin.The Journal of Chemical Physics 139, 154502 (2013).<\/span><\/p>\n

3 – Relation between flow enhancement factor and structure for core-softened fluids inside nanotubes<\/a>. J. R. Bordin, A. Diehl and Marcia C. Barbosa. The Journal of Physical Chemistry B, 117, 7047-7056 (2013).<\/span><\/p>\n

2012<\/strong><\/h2>\n

2 – Diffusion Enhancement in Core-softened fluid confined in nanotubes<\/a>. J. R. Bordin, A. B. de Oliveira, A. Diehl and Marcia C. Barbosa. The Journal of Chemical Physics 137,084504 (2012).<\/span><\/p>\n

1 – Ion fluxes through nanopores and transmembrane channels<\/a>. J. R. Bordin, A. Diehl, M. C. Barbosa, and Y. Levin.\u00a0 Physical Review E 85, 031914 (2012).<\/span><\/p>\n<\/div>\n

\n

\n<\/div>\n","protected":false},"excerpt":{"rendered":"

Submitted\/Preprint 72 – Intrinsic Disorder as a Biomimetic Design Paradigm. T. Puccinelli and J. R. Bordin. Submitted. 71 – Molecular Dynamics Study of Water Anomalies: A comparison of OPC3 and TIP4P\/\u03b5 models. V. dos S. Nascimento, R. M. S. Ferreira, M. C. Barbosa and J. R. Bordin. Submitted. 70 – The Physics of Getting Elected: … <\/p>\n

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