Research Square (Research Square),
Год журнала:
2022,
Номер
unknown
Опубликована: Ноя. 3, 2022
Abstract
The
5-year
survival
rate
of
patients
with
head
and
neck
squamous
cell
carcinoma
(HNSCC)
remains
<50%
due
to
risk
the
recurrence
metastasis.
Hypoxia
patterns
are
a
hallmark
HNSCC
that
associated
its
occurrence
progression.
However,
precise
role
hypoxia
during
HNSCC,
such
as
relationship
between
hypoxia,
tumor
immune
landscape
communication
orchestration
largely
unknown.
current
study
integrated
data
from
bulk
single-cell
RNA
sequencing
analyses
define
HNSCC.
First,
scoring
system
named
score
(HS)
was
constructed
based
on
hypoxia-related
genes
(HRGs)
expression.
outcomes,
stromal/immune/Estimate
scores,
responses
targeted
inhibitors,
chemotherapeutic,
immunotherapy
were
distinct
high
HS
group
low
group.
Single-cell
datasets
showed
different
distributions
in
populations.
Furthermore,
HLA-DPA1/CD4
axis
identified
unique
interaction
CD4+
T
Conv
pDC
cells.
These
findings
may
enhance
understanding
characteristics
Scientific Reports,
Год журнала:
2024,
Номер
14(1)
Опубликована: Ноя. 8, 2024
Metabolic
plasticity
and
ferroptosis
are
essential
for
colorectal
cancer
(CRC)
progression.
The
effects
prognostic
value
of
metabolic
plasticity-
ferroptosis-related
genes
(MPFRGs)
in
CRC
remain
unclear.
We
established
a
model
patients
by
identifying
important
ferroptosis.
Data
were
retrieved
from
Cancer
Genome
Atlas
(TCGA)
Gene
Expression
Omnibus;
MPFRG
data
obtained
GeneCards
FerrDb.
performed
functional
(to
explore
differences
between
the
two
subtypes)
single-sample
gene
set
assess
immune
environment)
enrichment
analyses.
Immunophenotype,
tumor
immunological
dysfunction,
exclusion
scores
assessed
to
determine
patient
responses.
A
least
absolute
shrinkage
selection
operator-Cox
regression
comprising
10
significant
differentially
expressed
(MPFDEGs)
was
constructed
using
TCGA
training
cohort
validated
GSE17536
GSE39582
datasets.
nomogram
ferroptosis-based
signatures,
revealing
clinical
application
potential
molecular
mechanisms
underlying
role
MPFRGs
CRC.
Our
(developed
based
on
MPFDEGs)
is
efficient
calculating
overall
survival
patients.
findings
provide
new
strategies
management
individualized
treatment
these
Frontiers in Pharmacology,
Год журнала:
2022,
Номер
13
Опубликована: Дек. 14, 2022
Background:
Calcium
signaling
is
implicated
in
multiple
processes
including
immune
response
that
important
tumor
progression.
Kidney
renal
clear
cell
carcinoma
(KIRC)
the
most
frequent
histological
type
of
with
up
to
a
third
cases
develop
metastases.
As
result
lack
in-depth
understanding
mechanisms
underlying
KIRC,
treatment
options
have
been
limited.
Here,
we
aim
comprehensively
investigate
landscape
Ca
2+
channels,
pumps
and
exchangers
KIRC
patients.
Methods:
The
mRNA
expression
profiles
gene
variations
58
calcium-related
genes
(CRGs)
patients
normal
control
were
downloaded
from
TCGA
database.
CRGs-related
risk
score
was
constructed
quantify
calcium
patterns
by
using
least
absolute
shrinkage
selection
operator
(LASSO)
regression.
prognostic
value,
biological
functions,
therapeutic
sensitivities
based
on
then
evaluated
methods.
Finally,
key
CRGs
identified
weighted
co-expression
network
analysis
(WGCNA).
TCGA-CPTAC,
GSE53757
datasets,
as
well
human
tissues
used
for
validation.
Results:
had
significant
differences
CRG
expression,
prognosis,
functions
between
two
clusters.
determined.
mutation
burden,
infiltration,
checkpoints,
targeted
inhibitors
remarkably
different
high
low
subtypes.
high-risk
subtype
characterized
immunosuppressive
microenvironment
poor
prognosis.
Meanwhile,
several
drugs
showed
distinct
sensitivity
TRPM3
protein
significantly
lower
tumors
than
controls.
Low
associated
prognosis
Conclusion:
Our
study
highlighted
promising
value
tumors.
evaluation
will
contribute
predicting
clinical
therapy
Background:
Pancreatic
adenocarcinoma
(PAAD)
is
a
highly
malignant
and
aggressive
tumor
with
high
incidence,
mortality,
poor
prognosis.
Exploring
the
molecular
features
associated
PAAD
development
will
help
to
improve
patient
treatment
PANoptosis
new
form
of
cell
death
that
variety
diseases.
However,
its
mechanism
in
are
unclear.
Therefore,
exploring
role
clinical
significance
urgently
needed.Methods:
Based
on
pertinent
information
from
The
Cancer
Genome
Atlas
(TCGA),
Gene
Expression
Omnibus
(GEO),
Genotype-Tissue
(GTEx)
databases,
we
examined
function
PANoptosis-related
genes
(PRGs)
screened
146
differentially
expressed
(PRDEGs).
prognostic,
therapeutic,
subtype
categorization
potential
PRDEGs
patients
were
examined.Results:
Unsupervised
clustering
was
performed
using
consistent
algorithm,
which
could
classify
into
three
groups
based
PRDEGs.
PRDEGs,
constructed
risk
assessment
model
containing
five
genes:
TNNT1,
SEZ6L,
S100A14,
CXCL10,
MATN3.
Using
this
model,
can
serve
as
standalone
prognostic
indicator,
divided
high-
low-risk
groups.
abnormal
expression
these
verified
bioinformatic
analysis
experiments.Conclusions:
In
summary,
study
discovered
plays
vital
regulatory
developed
predict
PAAD,
offer
novel
theoretical
framework
for
management
PAAD.
BMC Medical Genomics,
Год журнала:
2023,
Номер
16(1)
Опубликована: Ноя. 16, 2023
Abstract
Background
Small
bowel
cancer
(SBC)
is
a
very
rare
solid
malignancy.
Consequently,
compared
with
other
malignant
gastrointestinal
tumors,
our
knowledge
regarding
SBC,
specifically
its
molecular
attributes,
remains
limited.
Herein,
we
aim
to
provide
an
overview
of
the
gene
characteristics
Chinese
patients
We
particularly
focus
on
elucidating
genetic
intricacies
that
differentiate
SBC
whose
primary
tumors
originate
in
distinct
anatomical
regions
within
small
bowel.
Methods
During
period
ranging
from
February
2018
December
2022,
total
298
tumor
samples
were
consecutively
collected
diagnosed
cancer..
Next-generation
sequencing
(NGS)
was
performed
detect
mutation,
assess
microsatellite
instability
(MSI),
and
evaluate
mutational
burden
(TMB).
Additionally,,
IHC
used
analyze
level
PD-L1
expression
samples.
Results
The
outcomes
next-generation
unveiled
predominant
mutations
observed
(SBC).
top
ten
identified
as
follows:
TP53
(53%),
KRAS
(51%),
APC
(31%),
SMAD4
(19%),
VEGFA
(15%),
CDKN2A
RAC1
LRP1B
(14%),
MGMT
(14%,
CD74
(13%).
Subsequent
analysis
revealed
disparities
landscape
between
cohort
this
study
Memorial
Sloan
Kettering
Cancer
Center
(MSKCC),
Notably,
distinguishable
frequencies
several
genes,
including
ERBB2,
FBXW7,
PIK3CA,
etc
.
which
exhibited
contrasting
presence
both
MSKCC
cohort..
Furthermore,
noticed
variations
frequency
among
depending
specific
site
where
originated
In
addition,
distribution
high
(MSI-H)
(TMB)
levels
varied
originating
duodenum,
jejunum,
ileum.
Conclusion
profile
comparison
populations,
highlighting
unique
landscape.
noticeable
situated
duodenum
those
affecting
bowel,
suggests
these
should
be
treated
differently.
Research Square (Research Square),
Год журнала:
2022,
Номер
unknown
Опубликована: Ноя. 3, 2022
Abstract
The
5-year
survival
rate
of
patients
with
head
and
neck
squamous
cell
carcinoma
(HNSCC)
remains
<50%
due
to
risk
the
recurrence
metastasis.
Hypoxia
patterns
are
a
hallmark
HNSCC
that
associated
its
occurrence
progression.
However,
precise
role
hypoxia
during
HNSCC,
such
as
relationship
between
hypoxia,
tumor
immune
landscape
communication
orchestration
largely
unknown.
current
study
integrated
data
from
bulk
single-cell
RNA
sequencing
analyses
define
HNSCC.
First,
scoring
system
named
score
(HS)
was
constructed
based
on
hypoxia-related
genes
(HRGs)
expression.
outcomes,
stromal/immune/Estimate
scores,
responses
targeted
inhibitors,
chemotherapeutic,
immunotherapy
were
distinct
high
HS
group
low
group.
Single-cell
datasets
showed
different
distributions
in
populations.
Furthermore,
HLA-DPA1/CD4
axis
identified
unique
interaction
CD4+
T
Conv
pDC
cells.
These
findings
may
enhance
understanding
characteristics
