A Topological Selection of Folding Pathways from Native States of Knotted Proteins. - Agnese Barbensi; Naya Yerolemou; Oliver Vipond; Barbara I. Mahler; Pawel Dabrowski-Tumanski; Dimos Goundaroulis (Symmetry, 2021)

Hypergraphs for multiscale cycles in structured data. - Agnese Barbensi; Hee Rhang Yoon; Christian Degnbol Madsen; Deborah O. Ajayi; Michael P. H. Stumpf; Heather A. Harrington (CoRR, 2022)

Topological optimal transport for geometric cycle matching. - Stephen Y. Zhang; Michael P. H. Stumpf; Tom Needham; Agnese Barbensi (J. Appl. Comput. Topol., 2025)