CpGPT: a Foundation Model for DNA Methylation
Published: Oct. 29, 2024
Abstract
DNA
methylation
is
a
critical
epigenetic
modification
that
regulates
gene
expression
and
plays
significant
role
in
development
disease
processes.
Here,
we
present
the
Cytosine-phosphate-Guanine
Pretrained
Transformer
(CpGPT),
novel
foundation
model
pretrained
on
over
1,500
datasets
encompassing
100,000
samples
from
diverse
tissues
conditions.
CpGPT
leverages
an
improved
transformer
architecture
to
learn
comprehensive
representations
of
patterns,
allowing
it
impute
reconstruct
genome-wide
profiles
limited
input
data.
By
capturing
sequence,
positional,
contexts,
outperforms
specialized
models
when
finetuned
for
aging-related
tasks,
including
chronological
age
prediction,
mortality
risk,
morbidity
assessments.
The
highly
adaptable
across
different
platforms
tissue
types.
Furthermore,
analysis
sample-specific
attention
weights
enables
identification
most
influential
CpG
sites
individual
predictions.
As
model,
sets
new
benchmark
analysis,
achieving
strong
performance
Biomarkers
Aging
Challenge,
where
placed
second
overall
estimation
first
public
leaderboard
methylation-based
prediction.
Highlights
100,000+
samples.
demonstrates
zero-shot
tasks
imputation,
array
conversion,
reference
mapping.
achieves
state-of-the-art
results
prediction
estimation.
Sample-specific
interpretability
enabled
through
weights.
Language: Английский
Evaluation of Exploratory Fluid Biomarker Results from a Phase 1 Senolytic Trial in Mild Alzheimer’s Disease
Research Square (Research Square),
Journal Year:
2024,
Volume and Issue:
unknown
Published: March 8, 2024
Abstract
Senescent
cell
accumulation
contributes
to
the
progression
of
age-related
disorders
including
Alzheimer’s
disease
(AD).
Clinical
trials
evaluating
senolytics,
drugs
that
clear
senescent
cells,
are
underway,
but
lack
standardized
outcome
measures.
Our
team
recently
published
data
from
first
open-label
trial
evaluate
senolytics
(dasatinib
plus
quercetin)
in
AD.
After
12-weeks
intermittent
treatment,
we
reported
brain
exposure
dasatinib,
favorable
safety
and
tolerability,
modest
post-treatment
changes
cerebrospinal
fluid
(CSF)
inflammatory
AD
biomarkers
using
commercially
available
assays.
Herein,
present
more
comprehensive
exploratory
analyses
senolytic
associated
relevant
proteins,
metabolites,
lipids,
transcripts
measured
across
blood,
CSF,
urine.
These
included
mass
spectrometry
for
precise
quantification
amyloid
beta
(Aß)
tau
CSF;
immunoassays
assess
senescence
secretory
factors
plasma,
urine;
analysis
urinary
metabolites
lipids
blood
transcriptomic
chronic
stress
peripheral
cells.
Levels
Aß
species
remained
stable.
Targeted
cytokine
chemokine
revealed
treatment-associated
increases
plasma
fractalkine
MMP-7
CSF
IL-6.
Urinary
unchanged.
Modest
lipid
profile
suggestive
decreased
inflammation
were
observed
both
peripherally
centrally.
Blood
indicated
downregulation
genes
FOS,
FOSB,
IL1β,
IL8,
JUN,
JUNB,
PTGS2.
provide
a
foundation
developing
measures
studies
indicate
distinct
biofluid-specific
signatures
will
require
validation
future
studies.
ClinicalTrials.gov:
NCT04063124.
Language: Английский
Protocol for a pilot clinical trial of the senolytic drug combination Dasatinib Plus Quercetin to mitigate age-related health and cognitive decline in mental disorders
F1000Research,
Journal Year:
2025,
Volume and Issue:
13, P. 1072 - 1072
Published: March 5, 2025
Background
Major
depressive
disorder
(MDD)
and
schizophrenia
are
linked
to
accelerated
aging
leading
reduced
lifespan,
health
span
cognitive
decline.
Cellular
senescence,
in
which
cells
lose
proliferative
capacity
develop
a
senescence-associated
secretory
phenotype
(SASP),
plays
role
this
process.
Emerging
research
suggests
that
the
senolytic
regimen
of
dasatinib+quercetin
(D+Q)
reduces
senescent
cells,
potentially
mitigating
age-related
This
pilot
study
aims
assess
feasibility
safety
D+Q
older
adults
with
schizophrenia,
schizoaffective
disorder,
treatment-resistant
depression
(TRD).
Methods
single-center
will
recruit
30
participants
total
aged
50
years
or
schizophrenia/schizoaffective
60
TRD;
difference
age
limits
is
because
individuals
biologically
about
10
than
general
population
owing
metabolic
burden.
Each
participant
receive
two
consecutive
days
100
mg
oral
dasatinib
plus
1250
quercetin
at
baseline
weeks
one
through
three,
(i.e.,
on,
five
off
)
along
lifestyle
risk
management
education.
Questionnaires
assessments
measure
function
as
well
psychiatric
baseline,
week
10,
year.
Magnetic
Resonance
Imaging
(MRI)
structural
functional
brain
weeks.
Blood
sampling
for
SASP
testing
occur
seven
time
points:
four,
Conclusion
evaluate
D+Q’s
potential
counteract
TRD.
Trial
registration
Dasatinib
Plus
Quercetin
Accelerated
Aging
Mental
Disorders
registered
on
ClinicalTrials.gov:
NCT05838560;
posted
May
1,
2023.
Language: Английский
The Effects of Time‐Restricted Feeding on Handgrip Strength, Vigilance, and Perceived Anxiety and Depression in Older Adults: A Comparative Study Between Active and Sedentary Populations
Health Science Reports,
Journal Year:
2025,
Volume and Issue:
8(4)
Published: April 1, 2025
ABSTRACT
Background
and
Aims
Ramadan
intermittent
fasting
(RIF),
a
form
of
time‐restricted
feeding,
influences
various
physiological
psychological
functions.
However,
its
effects
on
older
adults
remain
insufficiently
understood.
This
study
examined
the
impact
RIF
physical
mental
health
parameters,
comparing
active
sedentary
individuals.
Specifically,
we
assessed
handgrip
strength
(HGS),
vigilance
performance,
anxiety,
depression
levels
to
determine
whether
regular
activity
mitigates
potential
adverse
RIF.
Methods
Fifty‐eight
(mean
age
62.93
±
3.99
years;
50%
female)
participated
in
this
study.
They
were
classified
into
an
group
(
n
=
26)
32)
based
self‐reported
levels.
Assessments
conducted
before
during
included
HGS
measurement
using
handheld
dynamometer,
digital
psychomotor
test,
validated
questionnaires
(General
Anxiety
Disorder‐7,
Geriatric
Depression
Scale,
Physical
Activity
Scale
for
Elderly).
Results
During
RIF,
both
groups
showed
significant
improvements
vigilance,
scores,
with
more
pronounced
benefits
group.
participants
experienced
decline
HGS,
whereas
individuals
maintained
stable
muscle
strength.
Conclusion
Regular
appears
enhance
while
preventing
adults.
These
findings
highlight
importance
maintaining
lifestyle
support
aging
populations.
Language: Английский
Evaluation of exploratory fluid biomarkers from a phase 1 senolytic trial in mild Alzheimer’s disease
Neurotherapeutics,
Journal Year:
2025,
Volume and Issue:
unknown, P. e00591 - e00591
Published: April 1, 2025
Language: Английский
Elevated senescence-associated secretory phenotype index in late-life bipolar disorder
Journal of Affective Disorders,
Journal Year:
2024,
Volume and Issue:
360, P. 163 - 168
Published: May 23, 2024
Language: Английский
Novel Insights into Psychosis and Antipsychotic Interventions: From Managing Symptoms to Improving Outcomes
Adonis Sfera,
No information about this author
Hassan Imran,
No information about this author
Dan O. Sfera
No information about this author
et al.
International Journal of Molecular Sciences,
Journal Year:
2024,
Volume and Issue:
25(11), P. 5904 - 5904
Published: May 28, 2024
For
the
past
70
years,
dopamine
hypothesis
has
been
key
working
model
in
schizophrenia.
This
contributed
to
development
of
numerous
inhibitors
dopaminergic
signaling
and
antipsychotic
drugs,
which
led
rapid
symptom
resolution
but
only
marginal
outcome
improvement.
Over
decades,
there
limited
research
on
quantifiable
pathological
changes
schizophrenia,
including
premature
cellular/neuronal
senescence,
brain
volume
loss,
attenuation
gamma
oscillations
electroencephalograms,
oxidation
lipids
plasma
mitochondrial
membranes.
We
surmise
that
aberrant
activation
aryl
hydrocarbon
receptor
by
toxins
derived
from
gut
microbes
or
environment
drives
cellular
neuronal
a
hallmark
Early
aging
promotes
secondary
changes,
impairment
loss
mitochondria,
gray
matter
depletion,
decreased
oscillations,
compensatory
metabolic
shift
lactate
lactylation.
The
aim
this
narrative
review
is
twofold:
(1)
summarize
what
known
about
senescence
schizophrenia
schizophrenia-like
disorders,
(2)
discuss
novel
strategies
for
improving
long-term
outcomes
severe
mental
illness
with
natural
senotherapeutics,
membrane
lipid
replacement,
transplantation,
microbial
phenazines,
antioxidant
phenothiazines,
glycogen
synthase
kinase-3
beta,
antagonists.
Language: Английский
Chronic constipation and diarrhea are associated with depression in the elderly: Insights from a large cross-sectional study
明骏 陈,
No information about this author
Hengheng Dai,
No information about this author
Zhanqi Tong
No information about this author
et al.
Research Square (Research Square),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Feb. 21, 2024
Abstract
Background:
This
study
was
to
investigate
the
relationship
between
chronic
constipation,
diarrhea,
and
depression
among
elderly,
as
extent
of
their
association
remains
elusive
despite
well-established
impact
gastrointestinal
symptoms
on
depression.
Methods:
Cross-sectional
analyses
were
conducted
using
data
from
2005-2010
U.S.
National
Health
Nutrition
Examination
Surveys
(NHANES),
focusing
adults
aged
60
above
with
a
sample
size
4878.
Depressive
measured
Patient
Questionnaire
9
(PHQ-9)
scale.
Information
about
diarrhea
or
constipation
retrieved
bowel
health
questionnaire.
Multivariable
weighted
logistic
regression
analysis
models
employed
estimate
gut
status,
adjusting
for
potential
confounders
(e.g.,
age,
gender,
race,
education,
marital
education
level,
smoking
drinking
habits,
medical
history).
Results:
Probable
(PHQ-9≥10)
depressive
(PHQ-9≥5)
more
prevalent
elderly
individuals
than
those
without
them
(P
<0.05).
After
all-cause,
likely
have
significant
increases
in
scores
several
subtypes
<0.05,
six
out
nine
symptoms).
We
observed
significantly
positive
correlation
patients
low
mood/despair,
appetite,
lack
concentration
Conclusion:
The
(PHQ-9
≥5)
may
be
associated
based
nationally
representative
2005
2010.
These
findings
suggest
that
experiencing
higher
prevalence
psychological
symptoms.
Language: Английский
Information Recognition and Recall in Older Adults Bearing Vascular Risk Factors with or without Diagnosis of Mild Cognitive Impairment
Journal of dementia and Alzheimer's disease,
Journal Year:
2024,
Volume and Issue:
1(1), P. 72 - 86
Published: Sept. 23, 2024
Episodic
memory
is
affected
early
and
a
basic
indication
of
neurodegeneration
especially
for
Alzheimer’s
disease.
The
aim
this
study
was
to
examine
whether
adults
with
vascular
risk
factors
are
differentiated
in
their
episodic
performance
from
individuals
mild
cognitive
impairment
(MCI).
diagnosed
MCI,
(VRF;
blood
pressure,
diabetes
mellitus,
or
hypercholesterolemia),
healthy
controls
assessed
using
the
Doors
People
test.
Statistical
processing
included
mediation
analyses
which
were
performed
separately
VRF
control
groups,
MCI
groups.
ANOVA
used
groups
matched
age
education.
showed
that
had
significantly
lower
than
verbal
recall
only,
F
(1,
83)
=
9.541,
p
0.003,
ηp2
0.10.
A
direct
effect
diagnosis
on
found
via
analysis
as
concerns
controls,
b
0.506,
SE
0.128,
<
0.001,
95%CI:
0.221–0.771,
favor
controls.
Concerning
tendency
directly
affect
shown
(α
0.005)
0.388,
0.150,
0.010,
0.043–0.720.
In
conclusion,
it
supported
patients
present
deficit
recall;
addition,
diagnostic
category
affects
all
groups’
same
condition.
These
results
indicated
aspect
can
be
sensitive
indicator
differentiate
factors,
well
two
pathological
each
other.
Language: Английский