51 citations · 117 across the 8 of their papers we have counts for
13 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…
Framization of a Temperley-Lieb algebra of type
Marcelo Flores, Dimos Goundaroulis
We extend the Framization of the Temperley-Lieb algebra to Coxeter systems of type . We first define a natural extension of the classical Temperley-Lieb algebra to Coxe…
Studies of global and local entanglements of individual protein chains using the concept of knotoids
Dimos Goundaroulis, Julien Dorier, Fabrizio Benedetti +1
We study here global and local entanglements of open protein chains by implementing the concept of knotoids. Knotoids have been introduced in 2012 by Vladimir Turaev as a generaliz…
A Survey on Temperley-Lieb-type quotients from the Yokonuma-Hecke algebras
Dimos Goundaroulis
In this survey we collect all results regarding the construction of the Framization of the Temperley-Lieb algebra of type as a quotient algebra of the Yokonuma-Hecke algebra of…
A new two-variable generalization of the Jones polynomial
Dimos Goundaroulis, Sofia Lambropoulou
We present a new 2-variable generalization of the Jones polynomial that can be defined through the skein relation of the Jones polynomial. The well-definedness of this new generali…
Classical link invariants from the framizations of the Iwahori-Hecke algebra and the Temperley-Lieb algebra of type
Dimos Goundaroulis, Sofia Lambropoulou
In this paper we first present the construction of the new 2-variable classical link invariants arising from the Yokonuma-Hecke algebras , which are not topologic…
Framization of the Temperley-Lieb Algebra
Dimos Goundaroulis, Jesus Juyumaya, Aristidis Kontogeorgis +1
We propose a framization of the Temperley-Lieb algebra. The framization is a procedure that can briefly be described as the adding of framing to a known knot algebra in a way that…
The Yokonuma-Temperley-Lieb Algebra
Dimos Goundaroulis, Jesus Juyumaya, Aristides Kontogeorgis +1
In this paper we introduce the Yokonuma-Temperley-Lieb algebra as a quotient of the Yokonuma-Hecke algebra over a two-sided ideal generated by an expression analogous to the one of…