Vaccines,
Journal Year:
2025,
Volume and Issue:
13(4), P. 415 - 415
Published: April 15, 2025
Human
Endogenous
Retroviruses
comprise
approximately
8%
of
the
human
genome,
serving
as
fragments
ancient
retroviral
infections.
Although
they
are
generally
maintained
in
a
silenced
state
by
robust
epigenetic
mechanisms,
specific
HERV
groups,
particularly
HERV-W
and
HERV-K,
can
become
derepressed
under
pathological
conditions,
thereby
contributing
to
initiation
progression
neuroinflammatory
neurodegenerative
processes.
Preclinical
studies
clinical
trials,
such
those
investigating
monoclonal
antibodies,
indicate
that
directly
targeting
these
elements
may
offer
novel
therapeutic
strategy.
In
this
review,
we
provide
an
overview
HERVs′
biology,
examine
their
role
diseases
amyotrophic
lateral
sclerosis,
multiple
Alzheimer′s
disease,
Parkinson′s
explore
prospects,
highlighting
both
challenges
potential
future
research
directions
needed
translate
approaches
into
interventions.
Biology,
Journal Year:
2023,
Volume and Issue:
12(7), P. 997 - 997
Published: July 13, 2023
The
advent
of
next-generation
sequencing
(NGS)
has
brought
about
a
paradigm
shift
in
genomics
research,
offering
unparalleled
capabilities
for
analyzing
DNA
and
RNA
molecules
high-throughput
cost-effective
manner.
This
transformative
technology
swiftly
propelled
advancements
across
diverse
domains.
NGS
allows
the
rapid
millions
fragments
simultaneously,
providing
comprehensive
insights
into
genome
structure,
genetic
variations,
gene
expression
profiles,
epigenetic
modifications.
versatility
platforms
expanded
scope
facilitating
studies
on
rare
diseases,
cancer
genomics,
microbiome
analysis,
infectious
population
genetics.
Moreover,
enabled
development
targeted
therapies,
precision
medicine
approaches,
improved
diagnostic
methods.
review
provides
an
insightful
overview
current
trends
recent
technology,
highlighting
its
potential
impact
areas
genomic
research.
delves
challenges
encountered
future
directions
including
endeavors
to
enhance
accuracy
sensitivity
data,
novel
algorithms
data
pursuit
more
efficient,
scalable,
solutions
that
lie
ahead.
Cell stem cell,
Journal Year:
2023,
Volume and Issue:
30(12), P. 1569 - 1584
Published: Oct. 18, 2023
Studies
of
mammalian
development
have
advanced
our
understanding
the
genetic,
epigenetic,
and
cellular
processes
that
orchestrate
embryogenesis
uncovered
new
insights
into
unique
aspects
human
embryogenesis.
Recent
studies
now
produced
first
epigenetic
maps
early
embryogenesis,
stimulating
ideas
about
reprogramming,
cell
fate
control,
potential
mechanisms
underpinning
developmental
plasticity
in
embryos.
In
this
review,
we
discuss
these
regulation
importance
for
safeguarding
development.
We
also
highlight
unanswered
questions
key
challenges
remain
to
be
addressed.
International Journal of Molecular Sciences,
Journal Year:
2023,
Volume and Issue:
24(9), P. 8334 - 8334
Published: May 5, 2023
High-Mobility
Group
(HMG)
chromosomal
proteins
are
the
most
numerous
nuclear
non-histone
proteins.
HMGB
domain
abundant
and
well-studied
HMG
They
involved
in
variety
of
biological
processes.
HMGB1
HMGB2
were
first
members
HMGB-family
to
be
discovered
found
all
studied
eukaryotes.
Despite
high
degree
homology,
differ
from
each
other
both
structure
functions.
In
contrast
HMGB2,
there
is
a
large
pool
works
devoted
protein
whose
structure–function
properties
have
been
described
detail
our
previous
review
2020.
this
review,
we
attempted
bring
together
diverse
data
about
functions
protein.
The
also
describes
post-translational
modifications
its
role
development
number
diseases.
Particular
attention
paid
interaction
with
various
targets,
including
DNA
partners.
influence
level
expression
on
processes
associated
cell
differentiation
aging
ability
mediate
embryonic
adult
stem
cells
discussed.
PLANT PHYSIOLOGY,
Journal Year:
2024,
Volume and Issue:
194(4), P. 1998 - 2016
Published: Jan. 17, 2024
Abstract
Chromatin
plays
a
crucial
role
in
genome
compaction
and
is
fundamental
for
regulating
multiple
nuclear
processes.
Nucleosomes,
the
basic
building
blocks
of
chromatin,
are
central
these
processes,
determining
chromatin
accessibility
by
limiting
access
to
DNA
various
proteins
acting
as
important
signaling
hubs.
The
association
histones
with
nucleosomes
folding
into
higher-order
structures
strongly
influenced
variety
epigenetic
marks,
including
methylation,
histone
variants,
post-translational
modifications.
Additionally,
wide
array
chaperones
ATP-dependent
remodelers
regulate
aspects
nucleosome
biology,
assembly,
deposition,
positioning.
This
review
provides
an
overview
recent
advances
our
mechanistic
understanding
how
organization
regulated
marks
plants.
Furthermore,
we
present
current
technologies
profiling
organization.
Nature Communications,
Journal Year:
2024,
Volume and Issue:
15(1)
Published: Jan. 26, 2024
Abstract
Synthetic
Chromosome
Rearrangement
and
Modification
by
LoxP-mediated
Evolution
(SCRaMbLE)
is
a
promising
tool
to
study
genomic
rearrangements.
However,
the
potential
of
SCRaMbLE
rearrangements
currently
hindered,
because
strain
containing
all
16
synthetic
chromosomes
not
yet
available.
Here,
we
construct
SparLox83R,
yeast
83
loxPsym
sites
distributed
across
chromosomes.
SparLox83R
produces
versatile
genome-wide
rearrangements,
including
inter-chromosomal
events.
Moreover,
when
combined
with
chromosomes,
hetero-diploids
leads
increased
diversity
relatively
faster
evolution
traits
compared
only
wild-type
Analysis
SCRaMbLEd
tolerance
nocodazole
demonstrates
that
can
perturb
transcriptome
3D
genome
structure
consequently
impact
phenotypes.
In
summary,
sparsely
serve
as
powerful
for
studying
consequence
accelerating
engineering
in
Saccharomyces
cerevisiae
.
Abstract
Understanding
the
function
of
eukaryotic
genomes,
including
human
genome,
is
undoubtedly
one
major
scientific
challenges
21st
century.
The
cornerstone
genome
organization
nucleosomes—elementary
building
blocks
chromatin
about
10
nm
in
size
that
wrap
DNA
around
an
octamer
histone
proteins.
Nucleosomes
are
integral
players
all
genomic
processes,
transcription,
replication
and
repair.
They
mediate
regulation
at
epigenetic
level,
bridging
discrete
nature
genetic
information
encoded
with
analog
physical
intermolecular
interactions
required
to
access
information.
Due
their
relatively
large
dynamic
nature,
nucleosomes
difficult
objects
for
experimental
characterization.
Molecular
dynamics
(MD)
simulations
have
emerged
over
years
as
a
useful
tool
complement
studies.
Particularly
recent
years,
advances
computing
power,
refinement
MD
force
fields
codes
opened
up
new
frontiers
terms
simulation
timescales
quality
related
systems.
It
has
become
possible
elucidate
atomistic
detail
functional
modes
such
unwrapping
sliding,
characterize
effects
modifications,
protein
sequence
variation
on
nucleosome
structure
stability,
describe
mechanisms
governing
chromatin‐associated
proteins
formation
supranucleosome
structures.
In
this
review,
we
systematically
analyzed
all‐atom
studies
structures
published
since
2018
discussed
relevance
context
older
studies,
data,
coarse‐grained
multiscale
This
article
categorized
under:
Software
>
Modeling
Statistical
Mechanics
Dynamics
Monte‐Carlo
Methods
Structure
Mechanism
Computational
Biochemistry
Biophysics
Neurobiology of Disease,
Journal Year:
2024,
Volume and Issue:
199, P. 106597 - 106597
Published: July 9, 2024
Pediatric
low
grade
brain
tumors
and
neurodevelopmental
disorders
share
proteins,
signaling
pathways,
networks.
They
also
germline
mutations
an
impaired
prenatal
differentiation
origin.
may
differ
in
the
timing
of
events
proliferation.
We
suggest
that
their
pivotal
distinct,
albeit
partially
overlapping,
outcomes
relate
to
cell
states,
which
depend
on
spatial
location,
gene
expression
during
development.
These
attributes
are
crucial
as
develops
sequentially,
single-cell
organization
influences
state,
thus
function.
Our
underlying
premise
is
root
cause
pediatric
differentiation.
Data
related
tumors,
disorders,
(sub)types,
locations,
developing
scant.
However,
emerging
single
technologies,
including
transcriptomic,
biology,
high-resolution
imaging
performed
over
developmental
time,
could
be
transformational
deciphering
pathologies
thereby
pharmacology.
Molecular Plant Pathology,
Journal Year:
2024,
Volume and Issue:
25(3)
Published: March 1, 2024
Abstract
Animal
studies
have
shown
that
virus
infection
causes
changes
in
host
chromatin
accessibility,
but
little
is
known
about
accessibility
of
plants
infected
by
viruses
and
its
potential
impact.
Here,
rice
stripe
(RSV)
was
used
to
investigate
virus‐induced
accessibility.
Our
analysis
identified
a
total
6462
open‐
3587
closed‐differentially
accessible
regions
(DACRs)
under
RSV
ATAC‐seq.
Additionally,
integrating
ATAC‐seq
RNA‐seq,
349
up‐regulated
genes
open‐DACRs
126
down‐regulated
closed‐DACRs
were
identified,
which
34
transcription
factors
(TFs)
further
search
upstream
motifs.
Transcription
levels
eight
these
TFs
validated
reverse
transcription‐PCR.
Importantly,
four
(OsWRKY77,
OsWRKY28,
OsZFP12
OsERF91)
interacted
with
proteins
are
therefore
predicted
play
important
roles
infection.
This
the
first
application
RNA‐seq
techniques
analyse
caused
Integrating
provides
new
approach
select
candidate
response