bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Oct. 17, 2024
ABSTRACT
Genome
editing
(GE)
is
widely
recognized
as
an
effective
and
valuable
technology
in
life
sciences
research.
However,
certain
genes
are
difficult
to
edit
depending
on
some
factors
such
the
type
of
species,
sequences,
GE
tools.
Therefore,
confirming
presence
or
absence
practices
previous
publications
crucial
for
effectively
design
establishment
research
using
GE.
Although
Editing
Meta-database
(GEM:
https://bonohu.hiroshima-u.ac.jp/gem/
)
aims
provide
comprehensive
information
possible,
it
does
not
indicate
how
each
registered
gene
involved
In
this
study,
we
developed
a
systematic
method
extracting
essential
large
language
models
from
based
GEM
GE-related
articles.
This
approach
allows
efficient
investigation
that
cannot
be
achieved
current
alone.
addition,
by
converting
extracted
into
metrics,
propose
potential
application
prioritize
future
The
novel
scores
expected
facilitate
selection
target
support
Database
Tool
URLs:
https://github.com/szktkyk/extract_geinfo
,
https://github.com/szktkyk/visualize_geinfo
Bioanalysis,
Journal Year:
2025,
Volume and Issue:
unknown, P. 1 - 10
Published: Feb. 4, 2025
CRISPR
(Clustered
Regularly
Interspaced
Short
Palindromic
Repeats)
has
transformed
molecular
biology
through
its
precise
gene-editing
capabilities.
Beyond
initial
applications
in
genetic
modification,
emerged
as
a
powerful
tool
diagnostics
and
biosensing.
This
review
explores
transition
from
genome
editing
to
innovative
detection
methods,
including
nucleic
acid
identification,
single
nucleotide
polymorphism
(SNP)
analysis,
protein
sensing.
Advanced
technologies
such
SHERLOCK
DETECTR
demonstrate
CRISPR's
potential
for
point-of-care
diagnostics,
enabling
rapid
highly
sensitive
detection.
The
integration
of
chemical
modifications,
CRISPR-Chip
technology,
enzymatic
systems
like
Cas12a
Cas13a
enhances
signal
amplification
efficiency.
These
advancements
promise
decentralized,
real-time
diagnostic
solutions
with
significant
implications
global
healthcare.
Furthermore,
the
fusion
artificial
intelligence
digital
health
platforms
is
paving
way
more
accessible,
cost-effective,
scalable
approaches,
ultimately
revolutionizing
precision
medicine.
Database,
Journal Year:
2025,
Volume and Issue:
2025
Published: Jan. 1, 2025
Abstract
Genome
editing
(GE)
is
widely
recognized
as
an
effective
and
valuable
technology
in
life
sciences
research.
However,
certain
genes
are
difficult
to
edit
depending
on
some
factors
such
the
type
of
species,
sequences,
GE
tools.
Therefore,
confirming
presence
or
absence
practices
previous
publications
crucial
for
designing
establishment
research
using
GE.
Although
Editing
Meta-database
(GEM:
https://bonohu.hiroshima-u.ac.jp/gem/)
aims
provide
comprehensive
information
possible,
it
does
not
indicate
how
each
registered
gene
involved
In
this
study,
we
developed
a
systematic
method
extracting
essential
large
language
models
from
based
GEM
GE-related
articles.
This
approach
allows
efficient
investigation
that
cannot
be
achieved
current
alone.
addition,
by
converting
extracted
into
metrics,
propose
potential
application
prioritize
future
The
novel
scores
expected
facilitate
selection
target
support
design
Database
URLs:
https://github.com/szktkyk/extract_geinfo,
https://github.com/szktkyk/visualize_geinfo
Cancer Medicine,
Journal Year:
2025,
Volume and Issue:
14(8)
Published: April 1, 2025
ABSTRACT
Background
Genetic
testing
and
sequencing
technologies
offer
a
comprehensive
understanding
of
cancer
genetics,
providing
rapid
cost‐effective
solutions.
In
particular,
these
advanced
play
an
important
role
in
assessing
the
complexities
rare
types
affecting
several
systems
including
bone,
endocrine,
digestive,
vascular,
soft
tissue.
This
review
will
explore
how
genetic
have
contributed
to
identification
biomarkers
across
diagnostic,
therapeutic,
prognostic
stages,
thereby
advancing
PM.
Methods
A
literature
search
was
conducted
PubMed
(MEDLINE),
EMBASE,
Web
Science
using
keywords
related
technologies,
testing,
cancer.
There
were
no
restrictions
on
language,
methodology,
age,
or
publication
date.
Both
primary
secondary
research
involving
humans
animals
considered.
Results
practice,
fluorescence
situ
hybridization,
karyotype,
microarrays
other
tests
are
mainly
applied
identify
specific
alterations
mutations
associated
with
progression.
Sequencing
such
as
next
generation
sequencing,
polymerase
chain
reaction,
whole
genome
exome
enable
analysis
millions
DNA
fragments.
These
techniques
assess
structure,
changes,
gene
expression
profiles,
epigenetic
variations.
Consequently,
they
help
detect
main
intrinsic
markers
that
crucial
for
personalizing
diagnosis,
treatment
options,
assessments,
leading
better
patient
prognosis.
highlights
why
methods
now
considered
tools
research.
However,
still
face
multiple
limitations,
false
positive
results,
limited
precision,
high
costs.
Conclusion
significantly
field
by
enabling
key
precision
treatment,
Despite
existing
their
integration
into
clinical
fields
continues
improve
development
personalized
medicine
strategies
complex
types.
Phycology,
Journal Year:
2025,
Volume and Issue:
5(2), P. 14 - 14
Published: April 26, 2025
Functional
genomics
is
a
powerful
approach
for
uncovering
molecular
mechanisms
underlying
complex
biological
processes
by
linking
genetic
changes
to
observable
phenotypes.
In
the
context
of
algal
symbiosis,
this
framework
offers
significant
potential
advancing
our
understanding
interactions
between
marine
dinoflagellates
and
their
cnidarian
hosts,
such
as
corals—organisms
that
are
foundational
ecosystems
biodiversity.
As
coral
bleaching
reef
degradation
intensify
due
environmental
stressors,
novel
strategies
urgently
needed
enhance
resilience
these
symbiotic
partnerships.
This
opinion
piece
explores
emerging
directions
in
functional
applied
coral–algal
with
focus
on
pathways
govern
photosynthesis
stress
tolerance.
We
discuss
challenges
opportunities
applying
support
health,
improve
ecosystem
resilience,
inform
biotechnological
applications
agriculture
medicine.
Together,
insights
posit
engineered
symbioses
mitigating
biodiversity
loss
supporting
sustainable
management
face
accelerating
change.
Investigative Ophthalmology & Visual Science,
Journal Year:
2024,
Volume and Issue:
65(13), P. 23 - 23
Published: Nov. 13, 2024
Purpose:
CLN3
Batten
disease
(also
known
as
juvenile
neuronal
ceroid
lipofuscinosis)
is
a
lysosomal
storage
disorder
that
typically
initiates
with
retinal
degeneration
but
followed
by
seizure
onset,
motor
decline
and
premature
death.
Patient-derived
induced
pluripotent
stem
cell–RPE
cells
show
defective
phagocytosis
of
photoreceptor
outer
segment
(POS).
Because
modifier
genes
are
implicated
in
disease,
our
goal
here
was
to
investigate
direct
link
between
mutation
POS
defect.
Methods:
Isogenic
control
mutant
cell
lines
were
generated
CRISPR-Cas9-mediated
biallelic
deletion
exons
7
8.
A
transgenic
CLN3Δ7–8/Δ7–8
(CLN3)
Yucatan
miniswine
also
used
study
the
impact
on
phagocytosis.
cultured
RPE
analyzed
Western
blotting
immunohistochemistry.
Electroretinogram,
optical
coherence
tomography
histological
analysis
wild-type
eyes
carried
out
at
6,
36,
or
48
months
age.
Results:
(CLN3
RPE)
displayed
decreased
binding
consequently
uptake
compared
isogenic
cells.
Furthermore,
phagocytosed
less
efficiently
than
POS.
Consistent
phagocytosis,
lipofuscin/autofluorescence
36
age
almost
complete
loss
photoreceptors
Conclusions:
CLN3Δ7
–
8/
Δ7
8
(which
affects
≤85%
patients)
both
leads
disease.
primary
dysfunction
independently
contribute
impaired
