The interplay of geometrical and topological entanglement in semiflexible knotted polymer rings confined inside a spherical cavity is investigated by using advanced numerical methods. By using stringent and robust algorithms for locating knots, we characterize how the knot length l(k) depends on the ring contour length L(c) and the radius of the confining sphere R(c). In the no-and strong-confinement cases, we observe weak knot localization and complete knot delocalization, respectively. We show that the complex interplay of l(k), L(c), and R(c) that seamlessly bridges these two limits can be encompassed by a simple scaling argument based on deflection theory. The same argument is used to rationalize the multiscale character of the entanglement that emerges with increasing confinement.
机构:
Broad Inst Harvard, Cambridge, MA 02139 USA
MIT, Div Hlth Sci & Technol, Cambridge, MA 02139 USA
Harvard Univ, Dept Math, Dept Organism & Evolutionary Biol, Program Evolutionary Dynam, Cambridge, MA 02138 USA
Harvard Univ, Dept Appl Math, Cambridge, MA 02138 USABroad Inst Harvard, Cambridge, MA 02139 USA
Lieberman-Aiden, Erez
;
van Berkum, Nynke L.
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Univ Massachusetts, Sch Med, Program Gene Funct & Express, Worcester, MA 01605 USA
Univ Massachusetts, Sch Med, Dept Mol Pharmacol & Biochem, Worcester, MA 01605 USABroad Inst Harvard, Cambridge, MA 02139 USA
van Berkum, Nynke L.
;
Williams, Louise
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Broad Inst Harvard, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Williams, Louise
;
Imakaev, Maxim
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MIT, Div Hlth Sci & Technol, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Imakaev, Maxim
;
Ragoczy, Tobias
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Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA
Univ Washington, Sch Med, Dept Radiat Oncol, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Ragoczy, Tobias
;
Telling, Agnes
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机构:
Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA
Univ Washington, Sch Med, Dept Radiat Oncol, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Telling, Agnes
;
Amit, Ido
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机构:
Broad Inst Harvard, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Amit, Ido
;
Lajoie, Bryan R.
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机构:
Univ Massachusetts, Sch Med, Program Gene Funct & Express, Worcester, MA 01605 USA
Univ Massachusetts, Sch Med, Dept Mol Pharmacol & Biochem, Worcester, MA 01605 USABroad Inst Harvard, Cambridge, MA 02139 USA
Lajoie, Bryan R.
;
Sabo, Peter J.
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Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Sabo, Peter J.
;
Dorschner, Michael O.
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Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Dorschner, Michael O.
;
Sandstrom, Richard
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Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Sandstrom, Richard
;
Bernstein, Bradley
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机构:
Broad Inst Harvard, Cambridge, MA 02139 USA
Harvard Univ, Sch Med, Dept Pathol, Boston, MA 02115 USABroad Inst Harvard, Cambridge, MA 02139 USA
Bernstein, Bradley
;
Bender, M. A.
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Univ Washington, Dept Pediat, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Bender, M. A.
;
Groudine, Mark
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Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA
Univ Washington, Sch Med, Dept Radiat Oncol, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Groudine, Mark
;
Gnirke, Andreas
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Broad Inst Harvard, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Gnirke, Andreas
;
Stamatoyannopoulos, John
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Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Stamatoyannopoulos, John
;
Mirny, Leonid A.
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机构:
MIT, Div Hlth Sci & Technol, Cambridge, MA 02139 USA
MIT, Dept Phys, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Mirny, Leonid A.
;
Lander, Eric S.
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h-index: 0
机构:
Broad Inst Harvard, Cambridge, MA 02139 USA
MIT, Dept Biol, Cambridge, MA 02139 USA
Harvard Univ, Sch Med, Dept Syst Biol, Boston, MA 02115 USABroad Inst Harvard, Cambridge, MA 02139 USA
机构:
Broad Inst Harvard, Cambridge, MA 02139 USA
MIT, Div Hlth Sci & Technol, Cambridge, MA 02139 USA
Harvard Univ, Dept Math, Dept Organism & Evolutionary Biol, Program Evolutionary Dynam, Cambridge, MA 02138 USA
Harvard Univ, Dept Appl Math, Cambridge, MA 02138 USABroad Inst Harvard, Cambridge, MA 02139 USA
Lieberman-Aiden, Erez
;
van Berkum, Nynke L.
论文数: 0引用数: 0
h-index: 0
机构:
Univ Massachusetts, Sch Med, Program Gene Funct & Express, Worcester, MA 01605 USA
Univ Massachusetts, Sch Med, Dept Mol Pharmacol & Biochem, Worcester, MA 01605 USABroad Inst Harvard, Cambridge, MA 02139 USA
van Berkum, Nynke L.
;
Williams, Louise
论文数: 0引用数: 0
h-index: 0
机构:
Broad Inst Harvard, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Williams, Louise
;
Imakaev, Maxim
论文数: 0引用数: 0
h-index: 0
机构:
MIT, Div Hlth Sci & Technol, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Imakaev, Maxim
;
Ragoczy, Tobias
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h-index: 0
机构:
Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA
Univ Washington, Sch Med, Dept Radiat Oncol, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Ragoczy, Tobias
;
Telling, Agnes
论文数: 0引用数: 0
h-index: 0
机构:
Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA
Univ Washington, Sch Med, Dept Radiat Oncol, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Telling, Agnes
;
Amit, Ido
论文数: 0引用数: 0
h-index: 0
机构:
Broad Inst Harvard, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Amit, Ido
;
Lajoie, Bryan R.
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h-index: 0
机构:
Univ Massachusetts, Sch Med, Program Gene Funct & Express, Worcester, MA 01605 USA
Univ Massachusetts, Sch Med, Dept Mol Pharmacol & Biochem, Worcester, MA 01605 USABroad Inst Harvard, Cambridge, MA 02139 USA
Lajoie, Bryan R.
;
Sabo, Peter J.
论文数: 0引用数: 0
h-index: 0
机构:
Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Sabo, Peter J.
;
Dorschner, Michael O.
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h-index: 0
机构:
Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Dorschner, Michael O.
;
Sandstrom, Richard
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h-index: 0
机构:
Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Sandstrom, Richard
;
Bernstein, Bradley
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h-index: 0
机构:
Broad Inst Harvard, Cambridge, MA 02139 USA
Harvard Univ, Sch Med, Dept Pathol, Boston, MA 02115 USABroad Inst Harvard, Cambridge, MA 02139 USA
Bernstein, Bradley
;
Bender, M. A.
论文数: 0引用数: 0
h-index: 0
机构:
Univ Washington, Dept Pediat, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Bender, M. A.
;
Groudine, Mark
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h-index: 0
机构:
Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA
Univ Washington, Sch Med, Dept Radiat Oncol, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Groudine, Mark
;
Gnirke, Andreas
论文数: 0引用数: 0
h-index: 0
机构:
Broad Inst Harvard, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Gnirke, Andreas
;
Stamatoyannopoulos, John
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h-index: 0
机构:
Univ Washington, Dept Genome Sci, Seattle, WA 98195 USABroad Inst Harvard, Cambridge, MA 02139 USA
Stamatoyannopoulos, John
;
Mirny, Leonid A.
论文数: 0引用数: 0
h-index: 0
机构:
MIT, Div Hlth Sci & Technol, Cambridge, MA 02139 USA
MIT, Dept Phys, Cambridge, MA 02139 USABroad Inst Harvard, Cambridge, MA 02139 USA
Mirny, Leonid A.
;
Lander, Eric S.
论文数: 0引用数: 0
h-index: 0
机构:
Broad Inst Harvard, Cambridge, MA 02139 USA
MIT, Dept Biol, Cambridge, MA 02139 USA
Harvard Univ, Sch Med, Dept Syst Biol, Boston, MA 02115 USABroad Inst Harvard, Cambridge, MA 02139 USA