Zobrazeno 1 - 10
of 20
pro vyhledávání: '"Dimos Goundaroulis"'
Autor:
Agnese Barbensi, Naya Yerolemou, Oliver Vipond, Barbara I. Mahler, Pawel Dabrowski-Tumanski, Dimos Goundaroulis
Publikováno v:
Symmetry, Vol 13, Iss 9, p 1670 (2021)
Understanding how knotted proteins fold is a challenging problem in biology. Researchers have proposed several models for their folding pathways, based on theory, simulations and experiments. The geometry of proteins with the same knot type can vary
Externí odkaz:
https://doaj.org/article/9e3dd10b91bf423ea7e59de60c4d9f06
Studies of global and local entanglements of individual protein chains using the concept of knotoids
Publikováno v:
Scientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
Abstract 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 generalization of knots in 3-dimensional space. More precisely, knotoi
Externí odkaz:
https://doaj.org/article/11463ba0a3e940a1bbbee741f3fb0f2a
Autor:
Erasmia Rouka, Eleftherios Beltsios, Dimos Goundaroulis, Georgios D. Vavougios, Evgeniy I. Solenov, Chrissi Hatzoglou, Konstantinos I. Gourgoulianis, Sotirios G. Zarogiannis
Publikováno v:
Medicina, Vol 55, Iss 6, p 267 (2019)
Background and objectives: Malignant pleural mesothelioma (MPM) is a devastating malignancy with poor prognosis. Reliable biomarkers for MPM diagnosis, monitoring, and prognosis are needed. The aim of this study was to identify genes associated with
Externí odkaz:
https://doaj.org/article/8fe9a5593f844892be4d57061ac909d2
Publikováno v:
Polymers, Vol 10, Iss 10, p 1126 (2018)
It has been a puzzle how decondensed interphase chromosomes remain essentially unknotted. The natural expectation is that in the presence of type II DNA topoisomerases that permit passages of double-stranded DNA regions through each other, all chromo
Externí odkaz:
https://doaj.org/article/13d9a9b84617497f962a757c045ddf75
Autor:
Dimos Goundaroulis, Neslihan Gügümcü, Sofia Lambropoulou, Julien Dorier, Andrzej Stasiak, Louis Kauffman
Publikováno v:
Polymers, Vol 9, Iss 9, p 444 (2017)
In this paper we introduce a method that offers a detailed overview of the entanglement of an open protein chain. Further, we present a purely topological model for classifying open protein chains by also taking into account any bridge involving the
Externí odkaz:
https://doaj.org/article/105cb9b326074b688d7ec57c549d5d3d
Publikováno v:
Topology and Geometry of Biopolymers. :185-199
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 topological invariants. However, this approach requires to close the curve into
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::514e6d446f08beab937e866ce4075e5e
http://doc.rero.ch/record/331474/files/BIOINFORMATICS_34_19_3402.pdf
http://doc.rero.ch/record/331474/files/BIOINFORMATICS_34_19_3402.pdf
Autor:
Naya Yerolemou, Dimos Goundaroulis, Oliver Vipond, Agnese Barbensi, Barbara I. Mahler, Pawel Dabrowski-Tumanski
Publikováno v:
Symmetry
Volume 13
Issue 9
Symmetry, Vol 13, Iss 1670, p 1670 (2021)
Volume 13
Issue 9
Symmetry, Vol 13, Iss 1670, p 1670 (2021)
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 geometry of knotted proteins by analysing the distribution of a protein's pl
Autor:
Piotr Sułkowski, Eric J. Rawdon, Pawel Rubach, Kenneth C. Millett, Joanna I. Sulkowska, Andrzej Stasiak, Julien Dorier, Dimos Goundaroulis, Pawel Dabrowski-Tumanski
Publikováno v:
Nucleic Acids Research
Nucleic acids research, vol. 47, no. D1, pp. D367-D375
Nucleic acids research, vol 47, iss D1
Nucleic acids research, vol. 47, no. D1, pp. D367-D375
Nucleic acids research, vol 47, iss D1
The KnotProt 2.0 database (the updated version of the KnotProt database) collects information about proteins which form knots and other entangled structures. New features in KnotProt 2.0 include the characterization of both probabilistic and determin
Publikováno v:
Mathematical Research Letters. 24:299-345
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 is both algebraically consistent and topologically meaningful. Our fra