Overview
I am an applied and computational topologist; my research is motivated and inspired by real life problems. My main focus is on understanding how shape influences behaviour, which is a common theme arising in the study of many natural systems. I have done my bachelor and master in Pisa (Italy), and my PhD and first postdoc in Oxford (UK). I then moved to Melbourne for my second postdoc, before starting my position at UQ.
Research Interests
- Topological Data Analysis
- Applied and physical knot theory
- Optimal transport for structured data
- (Hyper)network theory
- Protein structure and folding
- Genome 3D organisation
Qualifications
- Doctor of Philosophy of Maths, University of Oxford
Publications
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Journal Article: 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
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Journal Article: 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
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Journal Article: 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
Publications
Journal Article
-
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
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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
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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
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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
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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
