bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2023,
Volume and Issue:
unknown
Published: Oct. 20, 2023
Abstract
Molecular
subtyping
is
expected
to
enable
bladder
cancer
(BC)
precise
treatment.
However,
its
clinical
application
remains
defective
and
controversial.
Given
the
significance
of
tumor
immune
dysfunction
exclusion
(TIDE)
in
escape
immunotherapy,
we
aimed
develop
a
novel
TIDE-based
method
facilitate
personalized
management.
Transcriptome
data
BC
was
used
evaluate
heterogeneity
status
TIDE
patterns.
We
identified
69
biomarker
genes
classified
samples
into
three
subtypes.
Subtype
I
showed
lowest
malignancy
with
best
prognosis
highest
sensitivity
checkpoint
blockade
(ICB)
treatment,
which
enriched
metabolic
related
signaling
pathways.
III
represented
poorest
resistance
ICB
resulting
from
inhibitory
microenvironment
T
cell
terminal
exhaustion.
II
transitional
state
intermediate
level,
malignancy,
prognosis.
further
confirmed
existence
characteristics
our
subtypes
using
real-world
samples.
This
proved
be
more
efficient
than
known
methods
identifying
non-responders
immunotherapy.
also
found
that
combining
biomarkers
can
improve
specificity
predicting
response.
Moreover,
besides
guiding
this
classification
approach
assist
selecting
frontline
or
recommended
drugs.
Finally,
are
conserved
across
pan-tumors.
In
conclusion,
strategy
powerful
tool
for
pan-cancer
patients,
potentially
Journal of Translational Medicine,
Journal Year:
2024,
Volume and Issue:
22(1)
Published: April 17, 2024
Molecular
subtyping
is
expected
to
enable
precise
treatment.
However,
reliable
strategies
for
clinical
application
remains
defective
and
controversial.
Given
the
significance
of
tumor
immune
dysfunction
exclusion
(TIDE),
we
aimed
develop
a
novel
TIDE-based
strategy
guide
personalized
immunotherapy
in
bladder
cancer
(BC).
Journal of Translational Medicine,
Journal Year:
2025,
Volume and Issue:
23(1)
Published: Jan. 28, 2025
Immune
cells
within
tumor
tissues
play
important
roles
in
remodeling
the
microenvironment,
thus
affecting
progression
and
therapeutic
response.
The
current
study
was
designed
to
identify
key
markers
of
plasma
explore
their
role
high-grade
serous
ovarian
cancer
(HGSOC).
We
utilized
single-cell
sequencing
data
from
Gene
Expression
Omnibus
(GEO)
database
immune
cell
types
HGSOC
extract
related
via
Seurat
package.
effects
on
prognosis
were
analyzed
univariate
Cox
regression,
least
absolute
shrinkage
selection
operator
(LASSO)
gene
set
variation
analysis
(GSVA)
bulk
Cancer
Genome
Atlas
(TCGA)-HGSOC
cohort.
Finally,
evaluated
Cell
Counting
Kit-8
(CCK-8),
Transwell,
colony
formation,
wound
healing,
immunofluorescence
vivo
growth
assays.
At
level,
we
detected
a
significant
increase
proportion
samples
compared
that
normal
samples.
Within
tissues,
these
found
interact
with
CD8
+
T
cells,
fibroblasts
endothelial
cells.
In
addition,
patients
high-plasma
cell-related
score
group
had
better
survival
rates
higher
epithelial‒mesenchymal
transition
(EMT),
apoptosis
scores.
Moreover,
LASSO
regression
analyses
revealed
ubiquitin-conjugating
enzyme
E2
J1
(UBE2J1)
is
prognostic
marker
HGSOC.
Further
functional
studies
overexpression
UBE2J1
promoted
proliferation,
invasion,
migration
whereas
knockdown
attenuated
abovementioned
cellular
behaviors.
Additionally,
EMT,
as
evidenced
by
alterations
protein
expression
levels
N-cadherin,
snail
family
transcriptional
repressor
2
(Slug),
Twist
BHLH
transcription
factor
1
(Twist
1)
E-cadherin.
silencing
able
inhibit
vivo.
Overall,
this
elucidated
novel
oncogene
HGSOC,
uncovering
new
mechanisms
tumorigenesis
promising
targets
for
patients.
Frontiers in Oncology,
Journal Year:
2024,
Volume and Issue:
14
Published: Aug. 12, 2024
Ferroptosis
is
an
iron-dependent
form
of
cell
death
that
results
from
excess
lipid
peroxidation
in
cellular
membranes.
Within
the
last
decade,
physiological
and
pathological
roles
for
ferroptosis
have
been
uncovered
autoimmune
diseases,
inflammatory
conditions,
infection,
cancer
biology.
Excitingly,
metabolism
may
be
targeted
to
induce
by
cancers
are
resistant
other
forms
death.
sensitivity
regulated
oxidative
stress,
metabolism,
iron
which
all
influenced
tumor
microenvironment
(TME).
Whereas
some
types
shown
adapt
these
stressors,
it
not
clear
how
immune
cells
regulate
their
sensitivities
ferroptosis.
In
this
review,
we
discuss
mechanisms
different
subsets,
influences
infiltrate
TME,
interactions
can
determine
epithelial-to-mesenchymal
transition
(EMT)
metastasis.
While
much
focus
has
placed
on
inducing
cells,
important
considerations
ferroptosis-modulating
strategies
impact
anti-tumor
immunity.
From
perspective,
also
promising
immunotherapies
field
challenges
associated
with
targeting
specific
populations.
Journal of Translational Medicine,
Journal Year:
2024,
Volume and Issue:
22(1)
Published: Aug. 30, 2024
At
present,
immunotherapy
has
become
a
powerful
treatment
for
advanced
gastric
cancer
(AGC),
but
not
all
patients
can
benefit
from
it.
According
to
the
latest
research,
impact
of
B
cell
subpopulations
on
immune
microenvironment
(GC)
is
unknown.
Exploring
whether
interaction
between
cells
and
tumor
in
GC
affects
effectiveness
attracted
our
interest.
Cancers,
Journal Year:
2024,
Volume and Issue:
16(4), P. 803 - 803
Published: Feb. 16, 2024
Bladder
cancer
(BC)
is
one
of
the
most
common
tumors
in
world.
Cystoscopy
and
tissue
biopsy
are
standard
methods
screening
early
diagnosis
suspicious
bladder
lesions.
However,
they
invasive
procedures
that
may
cause
pain
infectious
complications.
Considering
limitations
both
procedures,
recurrence
resistance
to
BC
treatment,
it
necessary
develop
a
new
non-invasive
methodology
for
multiple
evaluations
patients
under
follow-up
cancer.
In
recent
years,
liquid
has
proven
be
very
useful
diagnostic
tool
detection
tumor
biomarkers.
This
technique
makes
possible
analyze
single
components
released
into
peripheral
circulation
monitor
progression.
Numerous
biomarkers
being
studied
interesting
clinical
applications
these
presented,
with
promising
results
diagnosis,
microscopic
disease,
prediction
response
treatment.
Molecular Pharmaceutics,
Journal Year:
2024,
Volume and Issue:
21(4), P. 1705 - 1718
Published: March 11, 2024
Photodynamic
therapy
(PDT)
is
often
applied
in
a
clinical
setting
to
treat
bladder
cancer.
However,
current
photosensitizers
report
drawbacks
such
as
low
efficacy,
selectivity,
and
numerous
side
effects,
which
have
limited
the
values
of
PDT
for
Previously,
we
developed
first
cancer-specific
aptamer
that
can
selectively
bind
be
internalized
by
tumor
cells
versus
normal
uroepithelium
cells.
Here,
use
an
aptamer-based
drug
delivery
system
deliver
photosensitizer
chlorine
e6
(Ce6)
into
In
addition
Ce6,
also
incorporate
catalase
complex
increase
local
oxygen
levels
tissue.
Compared
with
free
aptamer-guided
DNA
nanotrain
(NT)
loaded
Ce6
(NT–Catalase–Ce6)
specifically
recognize
cancer
cells,
produce
locally,
induce
ROS
cause
mitochondrial
apoptosis.
orthotopic
mouse
model
cancer,
intravesical
instillation
NT–Catalase–Ce6
exhibits
faster
internalization
longer
retention
time
tissue
compared
urothelium.
Moreover,
our
modified
significantly
inhibits
growth
fewer
effects
cystitis
than
Ce6.
This
therefore
improve
selectivity
efficacy
reduce
treatment
models
bearing
great
translational
value
therapy.
Bladder Cancer,
Journal Year:
2025,
Volume and Issue:
11(1)
Published: Jan. 1, 2025
Background
Bladder
cancer
is
one
of
the
most
prevalent
malignancies,
and
mechanisms
underlying
its
progression
role
tumor
microenvironment
(TME)
are
unclear.
Recent
advancements
in
single-cell
RNA
sequencing
(scRNA-seq)
spatial
transcriptomics
(ST)
enable
detailed
analysis
cellular
heterogeneity,
gene
expression,
cell–cell
interactions
bladder
diseases.
Methodology
We
conducted
a
comprehensive
search
for
recent
articles
that
have
investigated
diseases
using
scRNA-seq
ST.
Results
ST
led
to
significant
discoveries
disease
research.
These
technologies
enabled
identification
multiple
molecular
subtypes
within
individual
tumors
treatment
resistance.
Additionally,
differences
based
on
gender
been
explored,
explaining
heterogeneity
incidence
cancer.
findings
deepen
our
understanding
pathology
highlight
transformative
potential
identifying
novel
biomarkers
therapeutic
targets.
Conclusions
Integrating
has
considerably
enhanced
tissues.
insights
may
lead
development
personalized
therapies
improvement
patient
outcomes.
Several
challenges,
such
as
technical
limitations
access
difficulties,
need
be
addressed
future
clinical
application
these
technologies.
Frontiers in Immunology,
Journal Year:
2025,
Volume and Issue:
16
Published: Feb. 26, 2025
Triple-negative
breast
cancer
(TNBC)
is
a
highly
malignant
tumor
in
women,
characterized
by
high
morbidity,
mortality,
and
recurrence
rates.
Although
surgical
treatment,
radiotherapy,
chemotherapy
are
the
mainstays
of
current
treatment
methods,
heterogeneity
TNBC
results
unsatisfactory
outcomes
with
low
5-year
survival
Rapid
advancements
omics
technology
have
propelled
understanding
molecular
biology.
The
emergence
single-cell
RNA
sequencing
(scRNA-seq)
spatial
transcriptomics
(ST)
has
significantly
enhanced
knowledge
distribution,
functionality,
intercellular
interactions
various
cell
types
within
microenvironment,
including
cells,
T
B
macrophages,
fibroblasts.
present
study
provides
an
overview
technical
characteristics
scRNA-seq
ST,
highlighting
their
applications
exploring
heterogeneity,
distribution
patterns,
interactions.
This
review
aims
to
enhance
comprehension
at
cellular
level
for
development
effective
therapeutic
targets.
Frontiers in Immunology,
Journal Year:
2025,
Volume and Issue:
16
Published: March 12, 2025
Background
Colorectal
cancer
(CRC)
is
a
highly
heterogeneous
tumor,
with
significant
variation
in
malignant
cells,
posing
challenges
for
treatment
and
prognosis.
However,
this
heterogeneity
offers
opportunities
personalized
therapy.
Methods
The
consensus
non-negative
matrix
factorization
algorithm
was
employed
to
analyze
single-cell
transcriptomic
data
from
CRC,
which
helped
identify
cell
expression
programs
(MCEPs).
Subsequently,
crosstalk
network
linking
MCEPs
immune/stromal
trajectory
development
constructed
using
Monocle3
NicheNet.
Additionally,
bulk
RNA-seq
were
utilized
systematically
explore
the
relationships
between
MCEPs,
clinical
features,
genetic
mutations.
A
prognostic
model
then
established
through
Lasso
Cox
regression
analyses,
integrating
into
nomogram
risk
prediction.
Furthermore,
key
genes
associated
their
potential
therapeutic
targets
identified
protein-protein
interaction
networks,
followed
by
molecular
docking
predict
drug-binding
affinity.
Results
We
classified
CRC
transcriptional
states
eight
distinct
successfully
networks
these
immune
or
stromal
cells.
containing
15
developed,
demonstrating
an
AUC
greater
than
0.8
evaluation
over
1
10
years
when
combined
features.
drug
target
gene
TIMP1
identified,
several
targeted
drugs
discovered.
Conclusion
This
study
demonstrated
that
characterization
of
could
effectively
reveal
biological
features
tumors
like
exhibit
tumor
prognosis
assessment.
Our
research
provides
new
theoretical
practical
directions