Jessica A. Nash

Works (8)

Updated: July 5th, 2023 15:42

2022 journal article

Gold nanoparticle design for RNA compaction

BIOINTERPHASES, 17(6).

By: J. Nash n, M. Manning n, A. Gulyuk n, A. Kuznetsov * & Y. Yingling n 

MeSH headings : Gold / chemistry; RNA; Metal Nanoparticles / chemistry; Ligands; Nucleic Acids / metabolism
TL;DR: Large-scale all-atom molecular dynamics simulations are used to show that correlations between ligand length, metal core size, and ligand excess free volume control the ability of nanoparticles to bend dsRNA far below its persistence length. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: November 3, 2022

2017 review

Advances in Molecular Modeling of Nanoparticle Nucleic Acid Interfaces

[Review of ]. BIOCONJUGATE CHEMISTRY, 28(1), 3–10.

By: J. Nash n, A. Kwansa n, J. Peerless n, H. Kim n & Y. Yingling n 

Contributors: J. Nash n, A. Kwansa n, J. Peerless n, H. Kim n & Y. Yingling n 

MeSH headings : Ligands; Models, Molecular; Nanoparticles / chemistry; Nucleic Acids / chemistry; Solvents / chemistry
TL;DR: This Topical Review briefly review computational methods relevant to the interactions of inorganic NPs and nucleic acids and highlight recent insights obtained from various computational methods that were applied to studies of in organic nanoparticle-nanoparticle and nanoparticles-nucleic acid interfaces. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Search for effective chemical quenching to arrest molecular assembly and directly monitor DNA nanostructure formation

NANOSCALE, 9(4), 1637–1644.

By: J. Majikes n, J. Nash n & T. LaBean n

MeSH headings : DNA Replication; DNA, Single-Stranded / chemistry; Nanostructures / chemistry; Nanotechnology; Nucleic Acid Conformation
TL;DR: The search for a robust new technique, chemical quenching, to arrest molecular folding in DNA systems for subsequent characterization is presented and two miniM13 origami designs based on a 2.4 kb scaffold are introduced to examine the relevance of design in the folding process. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Binding of single stranded nucleic acids to cationic ligand functionalized gold nanoparticles

BIOINTERPHASES, 11(4).

By: J. Nash n, T. Tucker n, W. Therriault n & Y. Yingling n 

Contributors: Y. Yingling n , W. Therriault n, T. Tucker n & J. Nash n

MeSH headings : Cations / metabolism; Gold / metabolism; Molecular Dynamics Simulation; Nanoparticles / chemistry; Nanoparticles / metabolism; Nucleic Acids / metabolism
TL;DR: Overall, the results show that control over ssNA structure may be achieved with cationic NPs with a charge of more than 30, but the extent of the structural changes depends on sequence. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Competitive annealing of multiple DNA origami: formation of chimeric origami

NEW JOURNAL OF PHYSICS, 18.

By: J. Majikes n, J. Nash n & T. LaBean n

author keywords: structural DNA nanotechnology; programmed molecular assembly; DNAorigami; chimeric origami
TL;DR: This initial study shows that competitive anneals provide an exciting way to create diverse new nanostructures and may be used to examine the relative stability of various structural motifs. (via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Design of Potent and Controllable Anticoagulants Using DNA Aptamers and Nanostructures

MOLECULES, 21(2).

By: A. Rangnekar n, J. Nash n, B. Goodfred n, Y. Yingling n  & T. LaBean n

Contributors: A. Rangnekar n, J. Nash n, B. Goodfred n, Y. Yingling n  & T. LaBean n

author keywords: thrombin; DNA aptamers; anticoagulation; DNA nanotechnology
MeSH headings : Anticoagulants / chemistry; Anticoagulants / pharmacology; Aptamers, Nucleotide / chemistry; Aptamers, Nucleotide / pharmacology; Drug Design; Drug Evaluation, Preclinical; Humans; Molecular Dynamics Simulation; Nanostructures / chemistry; Partial Thromboplastin Time
TL;DR: By using DNA strand displacement, this work was able to turn the coagulation cascade off and on as desired, thereby enabling significantly better control over blood coagulating. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Characterization of Nucleic Acid Compaction with Histone-Mimic Nanoparticles through All-Atom Molecular Dynamics

ACS NANO, 9(12), 12374–12382.

By: J. Nash n, A. Singh n, N. Li n & Y. Yingling n 

Contributors: Y. Yingling n , N. Li n, A. Singh n & J. Nash n

author keywords: gold nanoparticles; DNA compaction; RNA compaction; molecular dynamics simulations; nanoparticle binding; nucleosome
MeSH headings : Gold / chemistry; Histones / chemistry; Metal Nanoparticles / chemistry; Molecular Dynamics Simulation; Nucleic Acids / chemistry; Nucleic Acids / metabolism; Nucleic Acids / ultrastructure
TL;DR: Large-scale, all-atom simulations of ligand-functionalized gold nanoparticle (NP) binding to double stranded NAs as a function of NP charge and solution salt concentration reveal different responses of RNA and DNA to cationic NPs. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 journal article

Progress in molecular modelling of DNA materials

MOLECULAR SIMULATION, 40(10-11), 777–783.

By: N. Li n, H. Kim n, J. Nash n, M. Lim n & Y. Yingling n 

Contributors: Y. Yingling n , M. Lim n, J. Nash n, H. Kim n & N. Li n

author keywords: molecular modelling; DNA materials; computer simulations
TL;DR: The recent advances in atomistic and coarse-grained force fields along with simulations of DNA-based materials, as applied to DNA–nanoparticle assemblies for controlled material morphology, DNA–surface interactions for biosensor development and DNA origami are reviewed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

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