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Journal Articles

Coalescence of liquid or gel-like DNA-encapsulating microdroplets

Takashi Nishio, Helmut Schiessel
Journal: The Journal of Chemical Physics
J. Chem. Phys. 161, 134904 (2024)
https://doi.org/10.1063/5.0223951
Published: October 2024
View article titled, Coalescence of liquid or gel-like DNA-encapsulating microdroplets
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Journal Articles

Origins of fine structure in DNA melting curves

Arevik V. Asatryan, Albert S. Benight, Artem V. Badasyan
Journal: The Journal of Chemical Physics
J. Chem. Phys. 161, 055103 (2024)
https://doi.org/10.1063/5.0213526
Published: August 2024
View article titled, Origins of fine structure in DNA melting curves
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Journal Articles

Insights into elastic properties of coarse-grained DNA models: q-stiffness of cgDNA vs cgDNA+

Editor’s Pick
Wout Laeremans, Midas Segers, Aderik Voorspoels, Enrico Carlon, Jef Hooyberghs
Journal: The Journal of Chemical Physics
J. Chem. Phys. 160, 144105 (2024)
https://doi.org/10.1063/5.0197053
Published: April 2024
View article titled, Insights into elastic properties of coarse-grained DNA models: <em>q</em>-stiffness of cgDNA vs cgDNA+
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Journal Articles

Deciphering the conformational preference and ionization dynamics of tetrahydrofuran: Insights from advanced spectroscopic techniques

Sung Man Park, Chan Ho Kwon
Journal: The Journal of Chemical Physics
J. Chem. Phys. 160, 114308 (2024)
https://doi.org/10.1063/5.0186570
Published: March 2024
View article titled, Deciphering the conformational preference and ionization dynamics of tetrahydrofuran: Insights from advanced spectroscopic techniques
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Includes: Supplementary data
Journal Articles

Remote regulation on the hydration sites of adenine molecules via derivatization

Yuanqi Ding, Chi Zhang, Lei Xie, Wei Xu
Journal: The Journal of Chemical Physics
J. Chem. Phys. 159, 221101 (2023)
https://doi.org/10.1063/5.0182990
Published: December 2023
View article titled, Remote regulation on the hydration sites of adenine molecules via derivatization
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Includes: Supplementary data
Journal Articles

Equilibrium melting probabilities of a DNA molecule with a defect: An exact solution of the Poland–Scheraga model

Arthur Genthon, Albertas Dvirnas, Tobias Ambjörnsson
Journal: The Journal of Chemical Physics
J. Chem. Phys. 159, 145102 (2023)
https://doi.org/10.1063/5.0168915
Published: October 2023
View article titled, Equilibrium melting probabilities of a DNA molecule with a defect: An exact solution of the Poland–Scheraga model
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Journal Articles

Base pair compositional variability influences DNA structural stability and tunes hydration thermodynamics and dynamics

Brataraj Ghosh, Sarbajit Layek, Dhananjay Bhattacharyya, Neelanjana Sengupta
Journal: The Journal of Chemical Physics
J. Chem. Phys. 159, 095101 (2023)
https://doi.org/10.1063/5.0154977
Published: September 2023
View article titled, Base pair compositional variability influences DNA structural stability and tunes hydration thermodynamics and dynamics
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Includes: Supplementary data
Journal Articles

Sequence-controlled chiral induced spin selectivity effect in ds-DNA

Editor’s Pick
Neeraj Bangruwa, Suryansh, Mayra Peralta, Rafael Gutierrez, Gianaurelio Cuniberti, Debabrata Mishra
Journal: The Journal of Chemical Physics
J. Chem. Phys. 159, 044702 (2023)
https://doi.org/10.1063/5.0157931
Published: July 2023
View article titled, Sequence-controlled chiral induced spin selectivity effect in ds-DNA
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Includes: Supplementary data
Journal Articles

Spin-selectivity effect of G-quadruplex DNA molecules

Lei Deng, Irfan Hussain Bhat, Ai-Min Guo
Journal: The Journal of Chemical Physics
J. Chem. Phys. 158, 244116 (2023)
https://doi.org/10.1063/5.0156389
Published: June 2023
View article titled, Spin-selectivity effect of G-quadruplex DNA molecules
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Journal Articles

Diffusion of knots in nanochannel-confined DNA molecules

Runfang Mao, Kevin D. Dorfman
Journal: The Journal of Chemical Physics
J. Chem. Phys. 158, 194901 (2023)
https://doi.org/10.1063/5.0151025
Published: May 2023
View article titled, Diffusion of knots in nanochannel-confined DNA molecules
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Includes: Supplementary data
Journal Articles

Energetic preference and topological constraint effects on the formation of DNA twisted toroidal bundles

Nhung T. T. Nguyen, Anh T. Ngo, Trinh X. Hoang
Journal: The Journal of Chemical Physics
J. Chem. Phys. 158, 114904 (2023)
https://doi.org/10.1063/5.0134710
Published: March 2023
View article titled, Energetic preference and topological constraint effects on the formation of DNA twisted toroidal bundles
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Includes: Supplementary data
Journal Articles

Diffusion mechanisms of DNA in agarose gels: NMR studies and Monte Carlo simulations

Ida Bochert, Jan-Philipp Günther, Peer Fischer, Günter Majer
Journal: The Journal of Chemical Physics
J. Chem. Phys. 156, 245103 (2022)
https://doi.org/10.1063/5.0092568
Published: June 2022
View article titled, Diffusion mechanisms of DNA in agarose gels: NMR studies and Monte Carlo simulations
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Includes: Supplementary data
Journal Articles

Manipulating electron-spin polarization using cysteine–DNA chiral conjugates

Chittatosh Pal, Subrata Majumder
Journal: The Journal of Chemical Physics
J. Chem. Phys. 156, 164704 (2022)
https://doi.org/10.1063/5.0088346
Published: April 2022
View article titled, Manipulating electron-spin polarization using cysteine–DNA chiral conjugates
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Journal Articles

Interactions between two knots in nanochannel-confined DNA molecules

Zixue Ma, Kevin D. Dorfman
Journal: The Journal of Chemical Physics
J. Chem. Phys. 155, 154901 (2021)
https://doi.org/10.1063/5.0067076
Published: October 2021
View article titled, Interactions between two knots in nanochannel-confined DNA molecules
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Includes: Supplementary data
Journal Articles

A numerical investigation of analyte size effects in nanopore sensing systems

Kai Szuttor, Patrick Kreissl, Christian Holm
Journal: The Journal of Chemical Physics
J. Chem. Phys. 155, 134902 (2021)
https://doi.org/10.1063/5.0065085
Published: October 2021
View article titled, A numerical investigation of analyte size effects in nanopore sensing systems
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Journal Articles

First-principles study of benzo[a]pyrene-7,8-dione and DNA adducts

Yue Liu, Xinguo Ren, Lixin He
Journal: The Journal of Chemical Physics
J. Chem. Phys. 154, 175102 (2021)
https://doi.org/10.1063/5.0046360
Published: May 2021
View article titled, First-principles study of benzo[<em>a</em>]pyrene-7,8-dione and DNA adducts
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Journal Articles

Extended magnesium and calcium force field parameters for accurate ion–nucleic acid interactions in biomolecular simulations

Sergio Cruz-León, Kara K. Grotz, Nadine Schwierz
Journal: The Journal of Chemical Physics
J. Chem. Phys. 154, 171102 (2021)
https://doi.org/10.1063/5.0048113
Published: May 2021
View article titled, Extended magnesium and calcium force field parameters for accurate ion–nucleic acid interactions in biomolecular simulations
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Includes: Supplementary data
Journal Articles

Deep learning for nanopore ionic current blockades

Ángel Díaz Carral, Magnus Ostertag, Maria Fyta
Journal: The Journal of Chemical Physics
J. Chem. Phys. 154, 044111 (2021)
https://doi.org/10.1063/5.0037938
Published: January 2021
View article titled, Deep learning for nanopore ionic current blockades
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Journal Articles

A mean-field model of linker-mediated colloidal interactions

W. Benjamin Rogers
Journal: The Journal of Chemical Physics
J. Chem. Phys. 153, 124901 (2020)
https://doi.org/10.1063/5.0020578
Published: September 2020
View article titled, A mean-field model of linker-mediated colloidal interactions
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Includes: Supplementary data
Journal Articles

Resistive amplitude fingerprints during translocation of linear molecules through charged solid-state nanopores

Sebastian Sensale, Ceming Wang, Hsueh-Chia Chang
Journal: The Journal of Chemical Physics
J. Chem. Phys. 153, 035102 (2020)
https://doi.org/10.1063/5.0013195
Published: July 2020
View article titled, Resistive amplitude fingerprints during translocation of linear molecules through charged solid-state nanopores
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Includes: Supplementary data