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Description
| - A-tracts are functionally important DNA sequences which induce helix bending and have peculiar structural properties. While A-tract structure has been qualitatively well characterized, their mechanical properties remain controversial. A-tracts appear structurally rigid and resist nucleosome formation, but seem flexible in DNA looping. In this work, we investigate mechanical properties of symmetric A(n)T(n) and asymmetric A(2n) tracts for n = 3, 4, 5 using two types of coarse-grained models. The first model represents DNA as an ensemble of interacting rigid bases with non-local quadratic deformation energy, the second one treats DNA as an anisotropically bendable and twistable elastic rod. Parameters for both models are inferred from microsecond long, atomic-resolution molecular dynamics simulations.
- A-tracts are functionally important DNA sequences which induce helix bending and have peculiar structural properties. While A-tract structure has been qualitatively well characterized, their mechanical properties remain controversial. A-tracts appear structurally rigid and resist nucleosome formation, but seem flexible in DNA looping. In this work, we investigate mechanical properties of symmetric A(n)T(n) and asymmetric A(2n) tracts for n = 3, 4, 5 using two types of coarse-grained models. The first model represents DNA as an ensemble of interacting rigid bases with non-local quadratic deformation energy, the second one treats DNA as an anisotropically bendable and twistable elastic rod. Parameters for both models are inferred from microsecond long, atomic-resolution molecular dynamics simulations. (en)
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Title
| - Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning
- Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning (en)
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skos:prefLabel
| - Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning
- Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning (en)
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skos:notation
| - RIV/00216224:14740/14:00076810!RIV15-MSM-14740___
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http://linked.open...avai/riv/aktivita
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http://linked.open...avai/riv/aktivity
| - I, P(ED1.1.00/02.0068), P(ED2.1.00/03.0058), P(GA14-21893S)
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http://linked.open...iv/cisloPeriodika
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http://linked.open...vai/riv/dodaniDat
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http://linked.open...aciTvurceVysledku
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http://linked.open.../riv/druhVysledku
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http://linked.open...iv/duvernostUdaju
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http://linked.open...titaPredkladatele
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http://linked.open...dnocenehoVysledku
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http://linked.open...ai/riv/idVysledku
| - RIV/00216224:14740/14:00076810
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http://linked.open...riv/jazykVysledku
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http://linked.open.../riv/klicovaSlova
| - MOLECULAR-DYNAMICS SIMULATIONS; SEQUENCE-DIRECTED CURVATURE; ADENINE-THYMINE TRACT; BASE-PAIR LEVEL; INDIRECT READOUT; NUCLEIC-ACIDS; B-DNA; CONFORMATIONAL-ANALYSIS; DISFAVORING SEQUENCES; ELASTIC PROPERTIES (en)
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http://linked.open.../riv/klicoveSlovo
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http://linked.open...odStatuVydavatele
| - GB - Spojené království Velké Británie a Severního Irska
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http://linked.open...ontrolniKodProRIV
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http://linked.open...i/riv/nazevZdroje
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http://linked.open...in/vavai/riv/obor
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http://linked.open...ichTvurcuVysledku
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http://linked.open...cetTvurcuVysledku
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http://linked.open...vavai/riv/projekt
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http://linked.open...UplatneniVysledku
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http://linked.open...v/svazekPeriodika
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http://linked.open...iv/tvurceVysledku
| - Špačková, Naďa
- Šponer, Jiří
- Lankaš, Filip
- Jurečka, Petr
- Zgarbová, Marie
- Drsata, Tomáš
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http://linked.open...ain/vavai/riv/wos
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issn
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number of pages
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http://bibframe.org/vocab/doi
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http://localhost/t...ganizacniJednotka
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