The University of Queensland

Journal Article

• Topology in soft and biological matter

  Tubiana, Luca, Alexander, Gareth P., Barbensi, Agnese, Buck, Dorothy, Cartwright, Julyan H.E., Chwastyk, Mateusz, Cieplak, Marek, Coluzza, Ivan, Čopar, Simon, Craik, David J., Di Stefano, Marco, Everaers, Ralf, Faísca, Patrícia F.N., Ferrari, Franco, Giacometti, Achille, Goundaroulis, Dimos, Haglund, Ellinor, Hou, Ya-Ming, Ilieva, Nevena, Jackson, Sophie E., Japaridze, Aleksandre, Kaplan, Noam, Klotz, Alexander R., Li, Hongbin, Likos, Christos N., Locatelli, Emanuele, López-León, Teresa, Machon, Thomas, Micheletti, Cristian ... Žumer, Slobodan (2024). Topology in soft and biological matter. Physics Reports, 1075, 1-137. doi: 10.1016/j.physrep.2024.04.002

• GridPyM: a Python module to handle grid diagrams

  Barbensi, Agnese and Celoria, Daniele (2024). GridPyM: a Python module to handle grid diagrams. Journal of Software for Algebra and Geometry, 14 (1), 31-39. doi: 10.2140/jsag.2024.14.31

• Homology of homologous knotted proteins

  Benjamin, Katherine, Mukta, Lamisah, Moryoussef, Gabriel, Uren, Christopher, Harrington, Heather A., Tillmann, Ulrike and Barbensi, Agnese (2023). Homology of homologous knotted proteins. Journal of the Royal Society. Interface, 20 (201) ARTN 20220727, 1-8. doi: 10.1098/rsif.2022.0727

• Double branched covers of knotoids

  Barbensi, Agnese, Buck, Dorothy, Harrington, Heather A. and Lackenby, Marc (2022). Double branched covers of knotoids. Communications in Analysis and Geometry, 30 (5), 1007-1057. doi: 10.4310/CAG.2022.v30.n5.a3

• A topological selection of folding pathways from native states of knotted proteins

  Barbensi, Agnese, Yerolemou, Naya, Vipond, Oliver, Mahler, Barbara, Dabrowski-Tumanski, Pawel and Goundaroulis, Dimos (2021). A topological selection of folding pathways from native states of knotted proteins. Symmetry, 13 (9) ARTN 1670, 1-17. doi: 10.3390/sym13091670

• f -distance of knotoids and protein structure

  Barbensi, Agnese and Goundaroulis, Dimos (2021). f -distance of knotoids and protein structure. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, 477 (2246) ARTN 20200898, 1-18. doi: 10.1098/rspa.2020.0898

• The Reidemeister graph is a complete knot invariant

  Barbensi, Agnese and Celoria, Daniele (2020). The Reidemeister graph is a complete knot invariant. Algebraic and Geometric Topology, 20 (2), 643-698. doi: 10.2140/agt.2020.20.643

• Grid diagrams as tools to investigate knot spaces and topoisomerase-mediated simplification of DNA topology

  Barbensi, Agnese, Celoria, Daniele, Harrington, Heather A., Stasiak, Andrzej and Buck, Dorothy (2020). Grid diagrams as tools to investigate knot spaces and topoisomerase-mediated simplification of DNA topology. Science Advances, 6 (9) ARTN eaay1458, 1-8. doi: 10.1126/sciadv.aay1458