Journal of Chemical Information and Modeling,
Год журнала:
2024,
Номер
64(9), С. 3767 - 3778
Опубликована: Апрель 15, 2024
In
this
work,
we
introduce
the
Solvate
Suite,
a
comprehensive
and
modular
command-line
interface
designed
for
molecular
simulation
microsolvation
modeling.
The
suite
interfaces
with
widely
used
scientific
software,
streamlining
computational
experiments
liquid
systems
through
automated
creation
of
boxes
topology
adjustable
parameters.
Furthermore,
it
has
features
graphical
statistical
analysis
simulated
properties
extraction
trajectory
configurations
various
filters.
Additionally,
introduces
innovative
strategies
modeling
multiscale
approach,
employing
equilibrated
dynamics
to
identify
favorable
solute–solvent
interactions
enabling
full
cluster
optimization
free-energy
calculations
without
imaginary
frequency
contamination.
The Journal of Physical Chemistry C,
Год журнала:
2024,
Номер
128(16), С. 6524 - 6537
Опубликована: Март 20, 2024
Recent
developments
in
machine
learning
interatomic
potentials
(MLIPs)
have
empowered
even
nonexperts
to
train
MLIPs
for
accelerating
materials
simulations.
However,
reproducibility
and
independent
evaluation
of
presented
MLIP
results
is
hindered
by
a
lack
clear
standards
current
literature.
In
this
Perspective,
we
aim
provide
guidance
on
best
practices
documenting
use
while
walking
the
reader
through
development
deployment
including
hardware
software
requirements,
generating
training
data,
models,
validating
predictions,
inference.
We
also
suggest
useful
plotting
analyses
validate
boost
confidence
deployed
models.
Finally,
step-by-step
checklist
practitioners
directly
before
publication
standardize
information
be
reported.
Overall,
hope
that
our
work
will
encourage
reliable
reproducible
these
MLIPs,
which
accelerate
their
ability
make
positive
impact
various
disciplines
science,
chemistry,
biology,
among
others.
Chemistry - A European Journal,
Год журнала:
2024,
Номер
30(60)
Опубликована: Авг. 7, 2024
Atomistic
modeling
can
provide
valuable
insights
into
the
design
of
novel
heterogeneous
catalysts
as
needed
nowadays
in
areas
of,
e.
g.,
chemistry,
materials
science,
and
biology.
Classical
force
fields
ab
initio
calculations
have
been
widely
adopted
molecular
simulations.
However,
these
methods
usually
suffer
from
drawbacks
either
low
accuracy
or
high
cost.
Recently,
development
machine
learning
interatomic
potentials
(MLIPs)
has
become
more
popular
they
tackle
problems
question
deliver
rather
accurate
results
at
significantly
lower
computational
In
this
review,
atomistic
catalytic
systems
with
aid
MLIPs
is
discussed,
showcasing
recently
developed
MLIP
models
selected
applications
for
systems.
We
also
highlight
best
practices
challenges
give
an
outlook
future
works
on
field
catalysis.
ACS Applied Materials & Interfaces,
Год журнала:
2024,
Номер
16(28), С. 36215 - 36223
Опубликована: Июль 2, 2024
The
efficient
harnessing
of
solar
power
for
water
treatment
via
photocatalytic
processes
has
long
been
constrained
by
the
challenge
understanding
and
optimizing
interactions
at
photocatalyst
surface,
particularly
in
presence
nontarget
cosolutes.
adsorption
these
cosolutes,
such
as
natural
organic
matter,
onto
photocatalysts
can
inhibit
degradation
pollutants,
drastically
decreasing
efficiency.
In
present
work,
computational
methods
are
employed
to
predict
inhibitory
action
a
suite
small
molecules
during
TiO2
para-chlorobenzoic
acid
(pCBA).
Specifically,
tryptophan,
coniferyl
alcohol,
succinic
acid,
gallic
trimesic
were
selected
interfering
agents
against
pCBA
observe
resulting
competitive
reaction
kinetics
bulk
surface
phase
reactions
according
Langmuir–Hinshelwood
dynamics.
Experiments
revealed
that
acids
most
with
pCBA,
followed
acid.
Density
functional
theory
(DFT)
machine
learning
interatomic
potentials
(MLIPs)
used
investigate
molecular
basis
interactions.
findings
showed
while
type
group
did
not
directly
affinity,
spatial
arrangement
electronic
groups
significantly
influenced
dynamics
corresponding
behavior.
Notably,
MLIPs,
derived
fine-tuning
models
pretrained
on
vastly
larger
dataset,
enabled
exploration
behaviors
over
substantially
longer
periods
than
typically
possible
conventional
ab
initio
dynamics,
enhancing
depth
dynamic
interaction
processes.
Our
study
thus
provides
pivotal
foundation
advancing
technology
environmental
applications
demonstrating
critical
role
molecular-level
shaping
outcomes.
ACS Catalysis,
Год журнала:
2025,
Номер
15(3), С. 1616 - 1634
Опубликована: Янв. 15, 2025
The
production
of
many
bulk
chemicals
relies
on
heterogeneous
catalysis.
rational
design
or
improvement
the
required
catalysts
critically
depends
insights
into
underlying
mechanisms
atomic
scale.
In
recent
years,
substantial
progress
has
been
made
in
applying
advanced
experimental
techniques
to
complex
catalytic
reactions
operando,
but
order
achieve
a
comprehensive
understanding,
additional
information
from
computer
simulations
is
indispensable
cases.
particular,
ab
initio
molecular
dynamics
(AIMD)
become
an
important
tool
explicitly
address
atomistic
level
structure,
dynamics,
and
reactivity
interfacial
systems,
high
computational
costs
limit
applications
systems
consisting
at
most
few
hundred
atoms
for
simulation
times
up
tens
picoseconds.
Rapid
advances
development
modern
machine
learning
potentials
(MLP)
now
offer
promising
approach
bridge
this
gap,
enabling
with
accuracy
small
fraction
costs.
Perspective,
we
provide
overview
current
state
art
MLPs
relevant
catalysis
along
discussion
prospects
use
science
years
come.
ABSTRACT
Electrocatalytic
CO
2
reduction
(ECR)
is
a
promising
approach
to
converting
into
chemicals
and
fuels.
Among
the
ECR
products,
C
products
such
as
ethylene,
ethanol,
acetate
have
been
extensively
studied
due
their
high
industrial
demands.
However,
mechanistic
understanding
of
product
formation
remains
unclear
lack
in
situ
or
operando
measurements
that
can
observe
complex
instantaneous
atomic
evolutions
adsorbates
at
electrode/electrolyte
interface.
Moreover,
sensitivity
reactions
variations
interface
further
widens
gap
between
performance
enhancement.
To
bridge
this
gap,
first‐principle
studies
provide
insights
how
influences
ECR.
In
study,
we
present
review
investigating
effects
various
factors
interface,
with
an
emphasis
on
formation.
We
begin
by
introducing
essential
metrics.
Next,
discuss
classified
components
namely,
electrocatalyst,
electrolyte,
adsorbates,
respectively,
Due
interplay
among
these
factors,
aim
deconvolute
influence
each
factor
clearly
demonstrate
impacts.
Finally,
outline
directions
for
products.
Chemical Physics Reviews,
Год журнала:
2025,
Номер
6(1)
Опубликована: Март 1, 2025
Surfaces
and
interfaces
play
key
roles
in
chemical
material
science.
Understanding
physical
processes
at
complex
surfaces
is
a
challenging
task.
Machine
learning
provides
powerful
tool
to
help
analyze
accelerate
simulations.
This
comprehensive
review
affords
an
overview
of
the
applications
machine
study
systems
materials.
We
categorize
into
following
broad
categories:
solid–solid
interface,
solid–liquid
liquid–liquid
surface
solid,
liquid,
three-phase
interfaces.
High-throughput
screening,
combined
first-principles
calculations,
force
field
accelerated
molecular
dynamics
simulations
are
used
rational
design
such
as
all-solid-state
batteries,
solar
cells,
heterogeneous
catalysis.
detailed
information
on
for