Exploring the role of noncoding RNAs in cancer diagnosis, prognosis, and precision medicine
Non-coding RNA Research,
Год журнала:
2024,
Номер
9(4), С. 1315 - 1323
Опубликована: Июль 1, 2024
This
review
article
studies
the
complex
field
of
noncoding
RNAs
(ncRNAs)
in
cancer
biology,
focusing
on
their
potential
use
as
biomarkers
and
therapeutic
targets.
NcRNAs
include
circular
(circRNAs),
long
(lncRNAs),
microRNAs
(miRNAs).
We
discuss
how
ncRNAs
affect
gene
expression
cancerous
cells,
spread
cancer,
metastasis.
The
illustrates
pathways
through
which
can
oncogenesis,
tumor
suppression,
resistance.
It
also
assesses
clinical
uses
non-coding
(ncRNAs),
including
utility
diagnosis,
prognosis.
Besides,
for
personalized
therapy
is
documented.
Finally,
it
concluded
that
understanding
role
ncRNA
importance
regarding
carcinogenesis,
therapy.
Язык: Английский
Advances and Mechanisms of RNA–Ligand Interaction Predictions
Life,
Год журнала:
2025,
Номер
15(1), С. 104 - 104
Опубликована: Янв. 15, 2025
The
diversity
and
complexity
of
RNA
include
sequence,
secondary
structure,
tertiary
structure
characteristics.
These
elements
are
crucial
for
RNA's
specific
recognition
other
molecules.
With
advancements
in
biotechnology,
RNA-ligand
structures
allow
researchers
to
utilize
experimental
data
uncover
the
mechanisms
complex
interactions.
However,
determining
these
complexes
experimentally
can
be
technically
challenging
often
results
low-resolution
data.
Many
machine
learning
computational
approaches
have
recently
emerged
learn
multiscale-level
features
predict
Predicting
interactions
remains
an
unexplored
area.
Therefore,
studying
is
essential
understanding
biological
processes.
In
this
review,
we
analyze
interaction
characteristics
by
examining
structure.
Our
goal
clarify
how
specifically
recognizes
ligands.
Additionally,
systematically
discuss
methods
predicting
guide
future
research
directions.
We
aim
inspire
creation
more
reliable
prediction
tools.
Язык: Английский
Designing small molecules that target a cryptic RNA binding site via base displacement
Research Square (Research Square),
Год журнала:
2025,
Номер
unknown
Опубликована: Янв. 29, 2025
Abstract
Most
RNA-binding
small
molecules
have
limited
solubility,
weak
affinity,
and/or
lack
of
specificity,
restricting
the
medicinal
chemistry
often
required
for
lead
compound
discovery.
We
reasoned
that
conjugation
these
unfavorable
ligands
to
a
suitable
“host”
molecule
can
solubilize
“guest”
and
deliver
it
site-specifically
an
RNA
interest
resolve
issues.
Using
this
framework,
we
designed
library
was
hosted
by
cobalamin
(Cbl)
interact
with
Cbl
riboswitch
through
common
base
displacement
mechanism.
Combining
in
vitro
binding,
cell-based
assays,
chemoinformatic
modeling,
structure-based
design,
unmasked
cryptic
binding
site
within
exploited
discover
compounds
affinity
exceeding
native
ligand,
antagonize
function,
or
bear
no
resemblance
Cbl.
These
data
demonstrate
how
privileged
biphenyl-like
scaffold
effectively
targets
optimizing
π-stacking
interactions
pocket.
Язык: Английский
RNA research for drug discovery: Recent advances and critical insight
Gene,
Год журнала:
2025,
Номер
947, С. 149342 - 149342
Опубликована: Фев. 19, 2025
Язык: Английский
Specific Interaction between a Fluoroquinolone Derivative, KG022, and RNAs with a Single Bulge
Biochemistry,
Год журнала:
2025,
Номер
unknown
Опубликована: Март 11, 2025
Small
compounds
targeting
RNAs
are
recognized
as
a
promising
modality
in
drug
discovery.
We
have
found
that
fluoroquinolone
derivative,
KG022,
binds
to
with
single-bulged
residues.
It
has
been
demonstrated
by
1H
NMR
KG022
bulged
G
or
C
and
GC
AU
base
pair
at
the
3′
adjacent
In
present
study,
effects
of
pairs
5′
residues
on
interaction
were
analyzed
mainly
NMR.
was
prefers
UA
CG
residues,
indicating
stable
complex
is
formed
stacking
among
ring
purine
bases
sides.
addition,
this
confirmed
analysis
19F-NMR
spectra.
Analysis
temperature
dependences
spectra
revealed
forms
more
having
position
than
those
pairs.
This
work
presented
useful
information
for
development
small
molecules
higher
affinity
target
RNAs.
Язык: Английский
Structure‐Binding Relationship of 2‐Amino‐1,8‐Naphthyridine Dimers: Role of Linkage Positions on DNA and RNA Recognition
Chemistry - A European Journal,
Год журнала:
2025,
Номер
unknown
Опубликована: Апрель 10, 2025
Abstract
The
study
explores
the
synthesis,
structural
analysis,
and
binding
properties
of
eight
analogs
2‐amino‐1,8‐naphthyridine
dimers
(ANPxys)
targeting
DNA
RNA.
These
dimers,
derived
from
ANP77,
are
connected
at
varying
positions
to
investigate
how
positional
alterations
influence
molecular
conformations
their
interactions
with
nucleic
acids.
primary
focus
lies
on
evaluating
effects
these
variations
RNA
through
fluorescence
quenching
thermal
denaturation
assays.
Absorption
measurements
revealed
distinct
electronic
states
for
ANPxys,
emission
maxima
between
389.5
398.5
nm.
Conformational
analysis
indicated
that
most
ANPxys
adopt
unstacked
in
aqueous
solutions,
though
some,
like
ANP47
ANP67,
showed
higher
probabilities
stacked
conformations.
Thermal
studies
demonstrated
bind
stabilize
cytosine‐rich
motifs
affinities,
ANP77
showing
strongest
effects.
U/CC
across
256
sequences
unique
patterns
each
ANPxy,
reflecting
sequence
specificity.
Hierarchical
clustering
grouped
into
parallel‐stacked
twisted‐stacked
clusters,
correlating
preferences.
This
work
highlights
critical
role
connection
determining
ANPxy
specificity
conformational
behavior.
findings
provide
a
basis
designing
small
molecules
tunable
structures
enhanced
RNA‐binding
capabilities,
paving
way
development
RNA‐targeted
therapeutics.
Язык: Английский
Advances in artificial intelligence-envisioned technologies for protein and nucleic acid research
Drug Discovery Today,
Год журнала:
2025,
Номер
unknown, С. 104362 - 104362
Опубликована: Апрель 1, 2025
Artificial
intelligence
(AI)
and
machine
learning
(ML)
have
revolutionized
pharmaceutical
research,
particularly
in
protein
nucleic
acid
studies.
This
review
summarizes
the
current
status
of
AI
ML
applications
sector,
focusing
on
innovative
tools,
web
servers,
databases.
paper
highlights
how
these
technologies
address
key
challenges
drug
development
including
high
costs,
lengthy
timelines,
complexity
biological
systems.
Furthermore,
potential
personalized
medicine,
cancer
response
prediction,
biomarker
identification
is
discussed.
The
integration
research
promises
to
accelerate
discovery,
reduce
ultimately
lead
more
effective
therapeutic
strategies.
Язык: Английский
The prediction of RNA-small molecule binding sites in RNA structures based on geometric deep learning
Chunjiang Sang,
Jiasai Shu,
Kang Wang
и другие.
International Journal of Biological Macromolecules,
Год журнала:
2025,
Номер
310, С. 143308 - 143308
Опубликована: Апрель 21, 2025
Язык: Английский
19F-NMR in RNA structural biology: exploring structures, dynamics, and small molecule interactions
European Journal of Medicinal Chemistry,
Год журнала:
2025,
Номер
unknown, С. 117682 - 117682
Опубликована: Апрель 1, 2025
Язык: Английский
Applications of artificial intelligence in digital pathology for gastric cancer
Frontiers in Oncology,
Год журнала:
2024,
Номер
14
Опубликована: Окт. 28, 2024
Gastric
cancer
is
one
of
the
most
common
cancers
and
leading
causes
cancer-related
deaths
in
worldwide.
Early
diagnosis
treatment
are
essential
for
a
positive
outcome.
The
integration
artificial
intelligence
pathology
field
increasingly
widespread,
including
histopathological
images
analysis.
In
recent
years,
application
digital
technology
emerged
as
potential
solution
to
enhance
understanding
management
gastric
cancer.
Through
sophisticated
image
analysis
algorithms,
technologies
facilitate
accuracy
sensitivity
personalized
therapeutic
strategies.
This
review
aims
evaluate
current
landscape
future
transforming
pathology,
so
provide
ideas
research.
Язык: Английский