Soft condensed matter physics of foods and macronutrients
S Assenza, R Mezzenga - Nature Reviews Physics, 2019 - nature.com
Understanding food properties is paramount for enhancing features such as appearance,
taste and texture, for improving health-related factors such as minimizing the onset of …
taste and texture, for improving health-related factors such as minimizing the onset of …
Computational design of transmembrane pores
Transmembrane channels and pores have key roles in fundamental biological processes
and in biotechnological applications such as DNA nanopore sequencing,–, resulting in …
and in biotechnological applications such as DNA nanopore sequencing,–, resulting in …
Probing the mechanical properties, conformational changes, and interactions of nucleic acids with magnetic tweezers
Nucleic acids are central to the storage and transmission of genetic information. Mechanical
properties, along with their sequence, both enable and fundamentally constrain the …
properties, along with their sequence, both enable and fundamentally constrain the …
Martini coarse-grained force field: extension to DNA
JJ Uusitalo, HI Ingólfsson, P Akhshi… - Journal of chemical …, 2015 - ACS Publications
We systematically parameterized a coarse-grained (CG) model for DNA that is compatible
with the Martini force field. The model maps each nucleotide into six to seven CG beads and …
with the Martini force field. The model maps each nucleotide into six to seven CG beads and …
Introducing improved structural properties and salt dependence into a coarse-grained model of DNA
We introduce an extended version of oxDNA, a coarse-grained model of deoxyribonucleic
acid (DNA) designed to capture the thermodynamic, structural, and mechanical properties of …
acid (DNA) designed to capture the thermodynamic, structural, and mechanical properties of …
Polyply; a python suite for facilitating simulations of macromolecules and nanomaterials
F Grünewald, R Alessandri, PC Kroon… - Nature …, 2022 - nature.com
Molecular dynamics simulations play an increasingly important role in the rational design of
(nano)-materials and in the study of biomacromolecules. However, generating input files …
(nano)-materials and in the study of biomacromolecules. However, generating input files …
Biomimetic potassium-selective nanopores
Reproducing the exquisite ion selectivity displayed by biological ion channels in artificial
nanopore systems has proven to be one of the most challenging tasks undertaken by the …
nanopore systems has proven to be one of the most challenging tasks undertaken by the …
Detecting DNA and RNA and differentiating single-nucleotide variations via field-effect transistors
We detect short oligonucleotides and distinguish between sequences that differ by a single
base, using label-free, electronic field-effect transistors (FETs). Our sensing platform utilizes …
base, using label-free, electronic field-effect transistors (FETs). Our sensing platform utilizes …
DNA sequence and length dictate the assembly of nucleic acid block copolymers
The self-assembly of block copolymers is often rationalized by structure and microphase
separation; pathways that diverge from this parameter space may provide new mechanisms …
separation; pathways that diverge from this parameter space may provide new mechanisms …
[HTML][HTML] DNA local-flexibility-dependent assembly of phase-separated liquid droplets
Phase separation of intracellular components has been recently realized as a mechanism
by which cells achieve membraneless organization. Here, we study the associative liquid …
by which cells achieve membraneless organization. Here, we study the associative liquid …