Nucleic Acids Research,
Год журнала:
2024,
Номер
53(D1), С. D1633 - D1644
Опубликована: Ноя. 22, 2024
Abstract
BindingDB
(bindingdb.org)
is
a
public,
web-accessible
database
of
experimentally
measured
binding
affinities
between
small
molecules
and
proteins,
which
supports
diverse
applications
including
medicinal
chemistry,
biochemical
pathway
annotation,
training
artificial
intelligence
models
computational
chemistry
methods
development.
This
update
reports
significant
growth
enhancements
since
our
last
review
in
2016.
Of
note,
the
now
contains
2.9
million
measurements
spanning
1.3
compounds
thousands
protein
targets.
largely
attributable
to
unique
focus
on
curating
data
from
US
patents,
has
yielded
substantial
influx
novel
data.
Recent
improvements
include
remake
website
following
responsive
web
design
principles,
enhanced
search
filtering
capabilities,
new
download
options
webservices
establishment
long-term
archive
replicated
across
dispersed
sites.
We
also
discuss
BindingDB’s
positioning
relative
related
resources,
its
open
sharing
policies,
insights
gleaned
dataset
plans
for
future
Comprehensive Reviews in Food Science and Food Safety,
Год журнала:
2025,
Номер
24(1)
Опубликована: Янв. 1, 2025
Abstract
The
food
flavor
science,
traditionally
reliant
on
experimental
methods,
is
now
entering
a
promising
era
with
the
help
of
artificial
intelligence
(AI).
By
integrating
existing
technologies
AI,
researchers
can
explore
and
develop
new
substances
in
digital
environment,
saving
time
resources.
More
more
research
will
use
AI
big
data
to
enhance
product
flavor,
improve
quality,
meet
consumer
needs,
drive
industry
toward
smarter
sustainable
future.
In
this
review,
we
elaborate
mechanisms
recognition
their
potential
impact
nutritional
regulation.
With
increase
accumulation
development
internet
information
technology,
databases
ingredient
have
made
great
progress.
These
provide
detailed
content,
molecules,
chemical
properties
various
compounds,
providing
valuable
support
for
rapid
evaluation
components
construction
screening
technology.
popularization
fields,
field
has
also
ushered
opportunities.
This
review
explores
role
enhancing
analysis
through
high‐throughput
omics
technologies.
algorithms
offer
pathway
scientifically
formulations,
thereby
customized
meals.
Furthermore,
it
discusses
safety
challenges
into
industry.
Journal of Materials Informatics,
Год журнала:
2025,
Номер
5(1)
Опубликована: Фев. 12, 2025
Single-atom
catalysts
(SACs)
have
emerged
as
a
research
frontier
in
catalytic
materials,
distinguished
by
their
unique
atom-level
dispersion,
which
significantly
enhances
activity,
selectivity,
and
stability.
SACs
demonstrate
substantial
promise
electrocatalysis
applications,
such
fuel
cells,
CO2
reduction,
hydrogen
production,
due
to
ability
maximize
utilization
of
active
sites.
However,
the
development
efficient
stable
involves
intricate
design
screening
processes.
In
this
work,
artificial
intelligence
(AI),
particularly
machine
learning
(ML)
neural
networks
(NNs),
offers
powerful
tools
for
accelerating
discovery
optimization
SACs.
This
review
systematically
discusses
application
AI
technologies
through
four
key
stages:
(1)
Density
functional
theory
(DFT)
ab
initio
molecular
dynamics
(AIMD)
simulations:
DFT
AIMD
are
used
investigate
mechanisms,
with
high-throughput
applications
expanding
accessible
datasets;
(2)
Regression
models:
ML
regression
models
identify
features
that
influence
performance,
streamlining
selection
promising
materials;
(3)
NNs:
NNs
expedite
known
structural
models,
facilitating
rapid
assessment
potential;
(4)
Generative
adversarial
(GANs):
GANs
enable
prediction
novel
high-performance
tailored
specific
requirements.
work
provides
comprehensive
overview
current
status
insights
recommendations
future
advancements
field.
Advanced Materials,
Год журнала:
2023,
Номер
36(6)
Опубликована: Окт. 10, 2023
Abstract
Combining
materials
science,
artificial
intelligence
(AI),
physical
chemistry,
and
other
disciplines,
informatics
is
continuously
accelerating
the
vigorous
development
of
new
materials.
The
emergence
“GPT
(Generative
Pre‐trained
Transformer)
AI”
shows
that
scientific
research
field
has
entered
era
intelligent
civilization
with
“data”
as
basic
factor
“algorithm
+
computing
power”
core
productivity.
continuous
innovation
AI
will
impact
cognitive
laws
methods,
reconstruct
knowledge
wisdom
system.
This
leads
to
think
more
about
informatics.
Here,
a
comprehensive
discussion
models
infrastructures
provided,
advances
in
discovery
design
are
reviewed.
With
rise
paradigms
triggered
by
“AI
for
Science”,
vane
informatics:
“MatGPT”,
proposed
technical
path
planning
from
aspects
data,
descriptors,
generative
models,
pretraining
directed
collaborative
training,
experimental
robots,
well
efforts
preparations
needed
develop
generation
informatics,
carried
out.
Finally,
challenges
constraints
faced
discussed,
order
achieve
digital,
intelligent,
automated
construction
joint
interdisciplinary
scientists.
Communications Chemistry,
Год журнала:
2024,
Номер
7(1)
Опубликована: Июль 3, 2024
Abstract
Generative
deep
learning
methods
have
recently
been
proposed
for
generating
3D
molecules
using
equivariant
graph
neural
networks
(GNNs)
within
a
denoising
diffusion
framework.
However,
such
are
unable
to
learn
important
geometric
properties
of
molecules,
as
they
adopt
molecule-agnostic
and
non-geometric
GNNs
their
networks,
which
notably
hinders
ability
generate
valid
large
molecules.
In
this
work,
we
address
these
gaps
by
introducing
the
Geometry-Complete
Diffusion
Model
(GCDM)
molecule
generation,
outperforms
existing
molecular
models
significant
margins
across
conditional
unconditional
settings
QM9
dataset
larger
GEOM-Drugs
dataset,
respectively.
Importantly,
demonstrate
that
GCDM’s
generative
process
enables
model
proportion
energetically-stable
at
scale
GEOM-Drugs,
whereas
previous
fail
do
so
with
features
learn.
Additionally,
show
extensions
GCDM
can
not
only
effectively
design
specific
protein
pockets
but
be
repurposed
consistently
optimize
geometry
chemical
composition
stability
property
specificity,
demonstrating
new
versatility
models.
Code
data
freely
available
on
GitHub
.
Matter,
Год журнала:
2024,
Номер
7(7), С. 2355 - 2367
Опубликована: Июль 1, 2024
The
directed
design
and
discovery
of
compounds
with
pre-determined
properties
is
a
long-standing
challenge
in
materials
research.
We
provide
perspective
on
progress
toward
achieving
this
goal
using
generative
models
for
chemical
compositions
crystal
structures
based
set
powerful
statistical
techniques
drawn
from
the
artificial
intelligence
community.
introduce
central
concepts
underpinning
crystalline
materials.
Coverage
provided
early
implementations
inorganic
crystals
adversarial
networks
variational
autoencoders
through
to
ongoing
involving
autoregressive
diffusion
models.
influence
choice
representation
architecture
discussed,
along
metrics
quantifying
quality
hypothetical
produced.
While
further
developments
are
required
enable
realistic
predictions
richer
structure
property
datasets,
already
proving
be
complementary
traditional
strategies.
Artificial Intelligence Chemistry,
Год журнала:
2024,
Номер
2(2), С. 100077 - 100077
Опубликована: Авг. 31, 2024
Molecular
similarity
pervades
much
of
our
understanding
and
rationalization
chemistry.
This
has
become
particularly
evident
in
the
current
data-intensive
era
chemical
research,
with
measures
serving
as
backbone
many
Machine
Learning
(ML)
supervised
unsupervised
procedures.
Here,
we
present
a
discussion
on
role
molecular
drug
design,
space
exploration,
"art"
generation,
representations,
more.
We
also
discuss
more
recent
topics
similarity,
like
ability
to
efficiently
compare
large
libraries.