Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection

Permanent URI for this collectionhttps://hdl.handle.net/11147/7148

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Subject: search.filters.subject.KnotoidsWoS Q: search.filters.wosQuartile.Q2

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  • Article
    Spatial Graphoids
    (Birkhauser, 2024) Gügümcü,N.; Kauffman,L.H.; Pongtanapaisan,P.
    To study knotted graphs with open ends arising in proteins, we introduce virtual graphoids, which are virtual spatial graph diagrams with two distinguished degree-one vertices modulo graph Reidemeister moves applied away from the distinguished vertices. Generalizing previously known results, we give topological interpretations of graphoids. By analyzing the Yamada polynomial, we provide bounds for the crossing numbers. As an application, we can produce nontrivial graphoids by verifying that they satisfy adequacy conditions in the same spirit as Lickorish and Thistlethwaite’s notion of adequate links. © The Author(s), under exclusive licence to Springer Nature Switzerland AG 2023.
  • Article
    Spatial Graphoids
    (Birkhauser, 2023) Gugumcu, Neslihan; Kauffman, Louis H.; Pongtanapaisan, Puttipong
    To study knotted graphs with open ends arising in proteins, we introduce virtual graphoids, which are virtual spatial graph diagrams with two distinguished degree-one vertices modulo graph Reidemeister moves applied away from the distinguished vertices. Generalizing previously known results, we give topological interpretations of graphoids. By analyzing the Yamada polynomial, we provide bounds for the crossing numbers. As an application, we can produce nontrivial graphoids by verifying that they satisfy adequacy conditions in the same spirit as Lickorish and Thistlethwaite’s notion of adequate links. © 2023, The Author(s), under exclusive licence to Springer Nature Switzerland AG.
  • Article
    Citation - WoS: 8
    Citation - Scopus: 8
    Invariants of Bonded Knotoids and Applications To Protein Folding
    (MDPI, 2022) Güğümcü, Neslihan; Gabrovsek, Bostjan; Kauffman, Louis H.
    In this paper, we study knotoids with extra graphical structure (bonded knotoids) in the settings of rigid vertex and topological vertex graphs. We construct bonded knotoid invariants by applying tangle insertion and unplugging at bonding sites of a bonded knotoid. We demonstrate that our invariants can be used for the analysis of the topological structure of proteins.