Cancer Cell,
Journal Year:
2021,
Volume and Issue:
39(11), P. 1497 - 1518.e11
Published: Oct. 28, 2021
ADAPTeR
is
a
prospective,
phase
II
study
of
nivolumab
(anti-PD-1)
in
15
treatment-naive
patients
(115
multiregion
tumor
samples)
with
metastatic
clear
cell
renal
carcinoma
(ccRCC)
aiming
to
understand
the
mechanism
underpinning
therapeutic
response.
Genomic
analyses
show
no
correlation
between
molecular
features
and
response,
whereas
ccRCC-specific
human
endogenous
retrovirus
expression
indirectly
correlates
clinical
T
receptor
(TCR)
analysis
reveals
significantly
higher
number
expanded
TCR
clones
pre-treatment
responders
suggesting
pre-existing
immunity.
Maintenance
highly
similar
clusters
TCRs
post-treatment
predict
ongoing
antigen
engagement
survival
families
cells
likely
recognizing
same
antigens.
In
responders,
nivolumab-bound
CD8
Science,
Journal Year:
2021,
Volume and Issue:
371(6536)
Published: March 25, 2021
Microbial
roles
in
cancer
formation,
diagnosis,
prognosis,
and
treatment
have
been
disputed
for
centuries.
Recent
studies
provocatively
claimed
that
bacteria,
viruses,
and/or
fungi
are
pervasive
among
cancers,
key
actors
immunotherapy,
engineerable
to
treat
metastases.
Despite
these
findings,
the
number
of
microbes
known
directly
cause
carcinogenesis
remains
small.
Critically
evaluating
building
frameworks
such
evidence
light
modern
biology
is
an
important
task.
In
this
Review,
we
delineate
between
causal
complicit
trace
common
themes
their
influence
through
host's
immune
system,
herein
defined
as
immuno-oncology-microbiome
axis.
We
further
review
intratumoral
approaches
manipulate
gut
or
tumor
microbiome
while
projecting
next
phase
experimental
discovery.
Cancer Communications,
Journal Year:
2020,
Volume and Issue:
40(4), P. 135 - 153
Published: April 1, 2020
Abstract
Conventional
immunohistochemistry
(IHC)
is
a
widely
used
diagnostic
technique
in
tissue
pathology.
However,
this
associated
with
number
of
limitations,
including
high
inter‐observer
variability
and
the
capacity
to
label
only
one
marker
per
section.
This
review
details
various
highly
multiplexed
techniques
that
have
emerged
circumvent
these
constraints,
allowing
simultaneous
detection
multiple
markers
on
single
section
comprehensive
study
cell
composition,
cellular
functional
cell‐cell
interactions.
Among
techniques,
multiplex
Immunohistochemistry/Immunofluorescence
(mIHC/IF)
has
be
particularly
promising.
mIHC/IF
provides
high‐throughput
staining
standardized
quantitative
analysis
for
reproducible,
efficient
cost‐effective
studies.
immediate
potential
translational
research
clinical
practice,
era
cancer
immunotherapy.
Genome Medicine,
Journal Year:
2022,
Volume and Issue:
14(1)
Published: June 27, 2022
Abstract
Single-cell
transcriptomics
(scRNA-seq)
has
become
essential
for
biomedical
research
over
the
past
decade,
particularly
in
developmental
biology,
cancer,
immunology,
and
neuroscience.
Most
commercially
available
scRNA-seq
protocols
require
cells
to
be
recovered
intact
viable
from
tissue.
This
precluded
many
cell
types
study
largely
destroys
spatial
context
that
could
otherwise
inform
analyses
of
identity
function.
An
increasing
number
platforms
now
facilitate
spatially
resolved,
high-dimensional
assessment
gene
transcription,
known
as
‘spatial
transcriptomics’.
Here,
we
introduce
different
classes
method,
which
either
record
locations
hybridized
mRNA
molecules
tissue,
image
positions
themselves
prior
assessment,
or
employ
arrays
probes
pre-determined
location.
We
review
sizes
tissue
area
can
assessed,
their
resolution,
genes
profiled.
discuss
if
preservation
influences
choice
platform,
provide
guidance
on
whether
specific
may
better
suited
discovery
screens
hypothesis
testing.
Finally,
bioinformatic
methods
analysing
transcriptomic
data,
including
pre-processing,
integration
with
existing
inference
cell-cell
interactions.
Spatial
-omics
are
already
improving
our
understanding
human
tissues
research,
diagnostic,
therapeutic
settings.
To
build
upon
these
recent
advancements,
entry-level
those
seeking
own
research.
Nature,
Journal Year:
2022,
Volume and Issue:
611(7937), P. 810 - 817
Published: Nov. 16, 2022
Abstract
The
tumour-associated
microbiota
is
an
intrinsic
component
of
the
tumour
microenvironment
across
human
cancer
types
1,2
.
Intratumoral
host–microbiota
studies
have
so
far
largely
relied
on
bulk
tissue
analysis
1–3
,
which
obscures
spatial
distribution
and
localized
effect
within
tumours.
Here,
by
applying
in
situ
spatial-profiling
technologies
4
single-cell
RNA
sequencing
5
to
oral
squamous
cell
carcinoma
colorectal
cancer,
we
reveal
spatial,
cellular
molecular
host–microbe
interactions.
We
adapted
10x
Visium
transcriptomics
determine
identity
location
intratumoral
microbial
communities
patient
tissues.
Using
GeoMx
digital
profiling
6
show
that
bacterial
populate
microniches
are
less
vascularized,
highly
immuno‑suppressive
associated
with
malignant
cells
lower
levels
Ki-67
as
compared
bacteria-negative
regions.
developed
a
RNA-sequencing
method
name
INVADEseq
(invasion–adhesion-directed
expression
sequencing)
and,
this
tumours,
identify
cell-associated
bacteria
host
they
interact,
well
uncovering
alterations
transcriptional
pathways
involved
inflammation,
metastasis,
dormancy
DNA
repair.
Through
functional
studies,
infected
invade
their
surrounding
environment
single
recruit
myeloid
Collectively,
our
data
not
random;
instead,
it
organized
immune
epithelial
functions
promote
progression.
