Publications and Preprints
Publications
Topology in soft and biological matter. EUTOPIA collaboration, 2024, Physics Reports
GridPyM: a Python module to handle grid diagrams. Joint with D.Celoria, 2022, ArXiv , J. Softw. Alg. Geom..
Homology of Homologous Knotted proteins. Joint with K.Benjamin, L.Mukta, G.Moryoussef, C.Uren, H.A.Harrington and U.Tillmann, 2022, ArXiv Royal Society Interface
A topological selection of folding pathways from native states of knotted proteins. Joint with N.Yerolemou,O.Vipond, B.I.Mahler, P.Dabrowski-Tumanski and D.Goundaroulis, 2021. Symmetry. Symmetry ArXiv
F-distance of knotoids and protein structure. Joint with D.Goundaroulis. Proceedings of the Royal Society A, 2021. PRSA ArXiv
Grid diagrams as tools to investigate knot spaces and topoisomerase-mediated simplification of DNA topology. Joint with D.Celoria, H.A.Harrington, A.Stasiak and D.Buck, Science Advances,2020 . ScienceAdvances ArXiv
Double branched cover of knotoids. Joint with D.Buck, H.A.Harrington, M.Lackenby, 2019 ArXiv Communications in Analysis & Geometry
The Reidemeister graph is a complete knot invariant. Joint with D.Celoria, Algebraic & Geometric Topology, 2018. AGT ArXiv
Preprints
Topological Optimal Transport for Geometric Cycle Matching. Joint with S.Y.Zhang, M.P.H.Stumpf and T.Needham 2024, ArXiv
The Topological Properties of the Protein Universe. Joint with C.D.Madsen, S.Y.Zhang, L.Ham, A.Davis, D.Pires and M.P.H.Stumpf, 2023, bioaRxiv
Knot intensity distribution: a local measure of entanglement. Joint with D.Celoria, 2022, ArXiv
Hypergraphs for multiscale cycles in structured data. Joint with H. Yoon, C.D. Madsen, D.O. Ajayi, M.P.H. Stumpf, H.A. Harrington, 2022, ArXiv