12 citations · 12 across the 2 of their papers we have counts for
6 papers
A topological selection of folding pathways from native states of knotted proteins
Agnese Barbensi, Naya Yerolemou, Oliver Vipond +3
Understanding the biological function of knots in proteins and their folding process is an open and challenging question in biology. Recent studies classify the topology and geomet…
-distance of knotoids and protein structure
Agnese Barbensi, Dimos Goundaroulis
Recent studies classify the topology of proteins by analysing the distribution of their projections using knotoids. The approximation of this distribution depends on the number of…
-curves in proteins
Pawel Dabrowski-Tumanski, Dimos Goundaroulis, Andrzej Stasiak +1
Apart from the knots formed by the main-chain, the proteins can form numerous topological structures, when included the covalent and ion-mediated interactions. In this work, we def…
A generalized skein relation for Khovanov homology and a categorification of the -invariant
Maria Chlouveraki, Dimos Goundaroulis, Aristides Kontogeorgis +1
The Jones polynomial is a famous link invariant that can be defined diagrammatically via a skein relation. Khovanov homology is a richer link invariant that categorifies the Jones…
A systematic classification of knotoids on the plane and on the sphere
Dimos Goundaroulis, Julien Dorier, Andrzej Stasiak
In this paper we generate and systematically classify all prime planar knotoids with up to 5 crossings. We also extend the existing list of knotoids in and add all knotoids w…
Knoto-ID: a tool to study the entanglement of open protein chains using the concept of knotoids
Julien Dorier, Dimos Goundaroulis, Fabrizio Benedetti +1
The backbone of most proteins forms an open curve. To study their entanglement, a common strategy consists in searching for the presence of knots in their backbones using topologic…