Toxicologic Pathology,
Journal Year:
2024,
Volume and Issue:
unknown
Published: Dec. 13, 2024
Pathology,
a
fundamental
discipline
that
bridges
basic
scientific
discovery
to
the
clinic,
is
integral
successful
drug
development.
Intrinsically
multimodal
and
multidimensional,
anatomic
pathology
continues
be
empowered
by
advancements
in
molecular
digital
technologies
enabling
spatial
tissue
detection
of
biomolecules
such
as
genes,
transcripts,
proteins.
Over
past
two
decades,
breakthroughs
biology
automation
digitization
laboratory
processes
have
enabled
implementation
higher
throughput
assays
generation
extensive
data
sets
from
sections
biopharmaceutical
research
development
units.
It
our
goal
provide
readers
with
some
rationale,
advice,
ideas
help
establish
modern
meet
emerging
needs
research.
This
manuscript
provides
(1)
high-level
overview
current
state
future
vision
for
excellence
practice
(2)
shared
perspectives
on
how
optimally
leverage
expertise
discovery,
toxicologic,
translational
pathologists
effective
spatial,
molecular,
support
discovery.
captures
insights
experiences,
challenges,
solutions
laboratories
various
organizations,
including
their
approaches
troubleshooting
adopting
new
technologies.
bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: March 11, 2024
Abstract
Spatial
omics
data
provide
rich
molecular
and
structural
information
about
tissues,
enabling
novel
insights
into
the
structure-function
relationship.
In
particular,
it
facilitates
analysis
of
local
heterogeneity
tissues
holds
promise
to
improve
patient
stratification
by
association
finer-grained
representations
with
clinically
relevant
features.
Here,
we
introduce
Kasumi,
a
method
for
identification
spatially
localized
neighborhoods
intra-
intercellular
relationships,
persistent
across
samples
conditions.
We
learn
compressed
explainable
while
preserving
biological
signals
that
are
readily
deployable
exploration
hypothesis
generation,
facilitating
translational
tasks.
address
tasks
disease
progression
response
treatment
in
cancer
on
coming
from
different
spatial
antibody-based
multiplexed
proteomics
platforms.
Kasumi
outperforms
related
neighborhood
approaches
offers
explanations
at
level
cell
types
or
directly
measurements,
coordination
multivariate
relationships
underlying
observed
treatment.
show
patterns
form
contiguous
regions
sizes.
However,
abundance
is
not
associated
their
relative
importance
downstream
non-abundant,
functional
tissue
strongly
unfavorable
outcomes
Frontiers in Systems Biology,
Journal Year:
2024,
Volume and Issue:
4
Published: July 12, 2024
Quantitative
Systems
Pharmacology
(QSP)
has
become
a
powerful
tool
in
the
drug
development
landscape.
To
facilitate
its
continued
implementation
and
to
further
enhance
applicability,
symbiotic
approach
which
QSP
is
combined
with
artificial
intelligence
(AI)
machine
learning
(ML)
seems
key.
This
manuscript
presents
four
case
examples
where
application
of
could
unlock
new
insights
from
multidimensional
data,
including
real-world
potentially
leading
breakthroughs
development.
Besides
remarkable
benefits
(
gAIns
)
that
symbiosis
can
offer,
it
does
also
carry
potential
challenges
pAIns
such
as
how
assess
quantify
uncertainty,
bias
error.
Hence,
ensure
successful
implementation,
arising
need
be
acknowledged
carefully
addressed.
Successful
ML/AI
serve
catalyst,
paving
way
for
paradigm
shift
Toxicologic Pathology,
Journal Year:
2024,
Volume and Issue:
unknown
Published: Dec. 13, 2024
Pathology,
a
fundamental
discipline
that
bridges
basic
scientific
discovery
to
the
clinic,
is
integral
successful
drug
development.
Intrinsically
multimodal
and
multidimensional,
anatomic
pathology
continues
be
empowered
by
advancements
in
molecular
digital
technologies
enabling
spatial
tissue
detection
of
biomolecules
such
as
genes,
transcripts,
proteins.
Over
past
two
decades,
breakthroughs
biology
automation
digitization
laboratory
processes
have
enabled
implementation
higher
throughput
assays
generation
extensive
data
sets
from
sections
biopharmaceutical
research
development
units.
It
our
goal
provide
readers
with
some
rationale,
advice,
ideas
help
establish
modern
meet
emerging
needs
research.
This
manuscript
provides
(1)
high-level
overview
current
state
future
vision
for
excellence
practice
(2)
shared
perspectives
on
how
optimally
leverage
expertise
discovery,
toxicologic,
translational
pathologists
effective
spatial,
molecular,
support
discovery.
captures
insights
experiences,
challenges,
solutions
laboratories
various
organizations,
including
their
approaches
troubleshooting
adopting
new
technologies.
