Molecular Systems Biology,
Journal Year:
2025,
Volume and Issue:
unknown
Published: May 12, 2025
Abstract
The
human
solute
carrier
(SLC)
superfamily
of
~460
membrane
transporters
remains
the
largest
understudied
protein
family
despite
its
therapeutic
potential.
To
advance
SLC
research,
we
developed
a
comprehensive
knowledgebase
that
integrates
systematic
multi-omics
data
sets
with
selected
curated
information
from
public
sources.
We
annotated
substrates
through
literature
curation,
compiled
disease
associations
using
mining
techniques,
and
determined
subcellular
localization
SLCs
by
combining
annotations
databases
an
immunofluorescence
imaging
approach.
This
SLC-centric
knowledge
is
made
accessible
to
scientific
community
via
web
portal
featuring
interactive
dashboards
visualization
tools.
Utilizing
this
systematically
collected
resource,
computationally
derived
integrated
functional
landscape
for
entire
superfamily.
identified
clusters
distinct
properties
established
distances
between
transporters.
Based
on
all
available
their
integration,
assigned
biochemical/biological
functions
each
SLC,
making
study
one
gene
function
potential
blueprint
future
research
endeavors.
The Innovation,
Journal Year:
2024,
Volume and Issue:
5(2), P. 100564 - 100564
Published: Jan. 8, 2024
The
type
V-I
CRISPR-Cas
system
is
becoming
increasingly
more
attractive
for
genome
editing.
However,
natural
nucleases
of
this
often
exhibit
low
efficiency,
limiting
their
application.
Here,
we
used
structure-guided
rational
design
and
protein
engineering
to
optimize
an
uncharacterized
Cas12i
nuclease,
Cas12i3.
As
a
result,
developed
Cas-SF01,
Cas12i3
variant
that
exhibits
significantly
improved
gene
editing
activity
in
mammalian
cells.
Cas-SF01
shows
comparable
or
superior
performance
compared
SpCas9
other
Cas12
nucleases.
Compared
Cas12i3,
has
expanded
PAM
range
effectively
recognizes
NTTN
noncanonical
NATN
TTVN
PAMs.
In
addition,
identified
amino
acid
substitution,
D876R,
markedly
reduced
the
off-target
effect
while
maintaining
high
on-target
activity,
leading
development
Nature Biotechnology,
Journal Year:
2025,
Volume and Issue:
unknown
Published: Feb. 18, 2025
Abstract
Understanding
the
diverse
dynamic
behaviors
of
individual
RNA
molecules
in
single
cells
requires
visualizing
them
at
high
resolution
real
time.
However,
single-molecule
live-cell
imaging
unmodified
endogenous
has
not
yet
been
achieved
a
generalizable
manner.
Here,
we
present
fluorescence
situ
hybridization
(smLiveFISH),
robust
approach
that
combines
programmable
RNA-guided,
RNA-targeting
CRISPR–Csm
complex
with
multiplexed
guide
RNAs
for
direct
and
efficient
visualization
range
cell
types,
including
primary
cells.
Using
smLiveFISH,
track
native
NOTCH2
MAP1B
transcripts
living
identify
two
distinct
localization
mechanisms
cotranslational
translocation
mRNA
endoplasmic
reticulum
directional
transport
toward
periphery.
This
method
potential
to
unlock
principles
governing
spatiotemporal
organization
health
disease.
Molecular Systems Biology,
Journal Year:
2025,
Volume and Issue:
unknown
Published: May 12, 2025
Abstract
The
human
solute
carrier
(SLC)
superfamily
of
~460
membrane
transporters
remains
the
largest
understudied
protein
family
despite
its
therapeutic
potential.
To
advance
SLC
research,
we
developed
a
comprehensive
knowledgebase
that
integrates
systematic
multi-omics
data
sets
with
selected
curated
information
from
public
sources.
We
annotated
substrates
through
literature
curation,
compiled
disease
associations
using
mining
techniques,
and
determined
subcellular
localization
SLCs
by
combining
annotations
databases
an
immunofluorescence
imaging
approach.
This
SLC-centric
knowledge
is
made
accessible
to
scientific
community
via
web
portal
featuring
interactive
dashboards
visualization
tools.
Utilizing
this
systematically
collected
resource,
computationally
derived
integrated
functional
landscape
for
entire
superfamily.
identified
clusters
distinct
properties
established
distances
between
transporters.
Based
on
all
available
their
integration,
assigned
biochemical/biological
functions
each
SLC,
making
study
one
gene
function
potential
blueprint
future
research
endeavors.
