Comprehensive Overview of Bottom-Up Proteomics Using Mass Spectrometry
ACS Measurement Science Au,
Год журнала:
2024,
Номер
4(4), С. 338 - 417
Опубликована: Июнь 4, 2024
Proteomics
is
the
large
scale
study
of
protein
structure
and
function
from
biological
systems
through
identification
quantification."Shotgun
proteomics"
or
"bottom-up
prevailing
strategy,
in
which
proteins
are
hydrolyzed
into
peptides
that
analyzed
by
mass
spectrometry.Proteomics
studies
can
be
applied
to
diverse
ranging
simple
proteoforms,
protein-protein
interactions,
structural
alterations,
absolute
relative
quantification,
post-translational
modifications,
stability.To
enable
this
range
different
experiments,
there
strategies
for
proteome
analysis.The
nuances
how
proteomic
workflows
differ
may
challenging
understand
new
practitioners.Here,
we
provide
a
comprehensive
overview
proteomics
methods.We
cover
biochemistry
basics
extraction
interpretation
orthogonal
validation.We
expect
Review
will
serve
as
handbook
researchers
who
field
bottom-up
proteomics.
Язык: Английский
Comprehensive Overview of Bottom-up Proteomics using Mass Spectrometry
arXiv (Cornell University),
Год журнала:
2023,
Номер
unknown
Опубликована: Янв. 1, 2023
Proteomics
is
the
large
scale
study
of
protein
structure
and
function
from
biological
systems
through
identification
quantification.
"Shotgun
proteomics"
or
"bottom-up
prevailing
strategy,
in
which
proteins
are
hydrolyzed
into
peptides
that
analyzed
by
mass
spectrometry.
studies
can
be
applied
to
diverse
ranging
simple
proteoforms,
protein-protein
interactions,
structural
alterations,
absolute
relative
quantification,
post-translational
modifications,
stability.
To
enable
this
range
different
experiments,
there
strategies
for
proteome
analysis.
The
nuances
how
proteomic
workflows
differ
may
challenging
understand
new
practitioners.
Here,
we
provide
a
comprehensive
overview
proteomics
methods
aid
novice
experienced
researcher.
We
cover
biochemistry
basics
extraction
interpretation
orthogonal
validation.
expect
work
serve
as
basic
resource
practitioners
field
shotgun
bottom-up
proteomics.
Язык: Английский
A special issue ofEssays in Biochemistryon structural mass spectrometry
Essays in Biochemistry,
Год журнала:
2023,
Номер
67(2), С. 147 - 149
Опубликована: Март 1, 2023
Abstract
Mass
spectrometry
(MS)
is
now
established
as
an
analytical
tool
to
interrogate
the
structure
and
dynamics
of
proteins
their
assemblies.
An
array
MS-based
technologies
has
been
developed,
with
each
providing
unique
information
pertaining
protein
structure,
forming
heart
integrative
structural
biology
studies.
This
special
issue
includes
a
collection
review
articles
that
discuss
both
emerging
MS
methodologies,
along
examples
how
these
are
being
deployed
function.
Combined,
this
highlights
immense
potential
toolkit
in
study
molecular
mechanisms
underpinning
cellular
homeostasis
disease.
Язык: Английский
Multi-adductomics: Advancing mass spectrometry techniques for comprehensive exposome characterization
TrAC Trends in Analytical Chemistry,
Год журнала:
2024,
Номер
180, С. 117900 - 117900
Опубликована: Авг. 5, 2024
Язык: Английский
A strategy for refining the calculation of contacts in protein-RNA complexes
Опубликована: Дек. 2, 2024
Protein-RNA
interactions
are
essential
for
several
biological
processes,
including
gene
expression.
However,
traditional
methods
studying
these
use
superficial
criteria
to
perform
this
analysis,
which
can
lead
false
positives.
This
study
presents
a
new
strategy
modeling
protein-RNA
contacts.
We
classify
RNA
atoms
and
integrate
previously
used
protein
contacts,
developing
the
proposed
approach
that
detects
broader
range
of
interactions.
compare
our
proposal
an
existing
benchmark
observe
method
identifies
more
contacts
provides
detailed
insights
into
different
types
interactions,
such
as
aromatic
stacking
hydrogen
bonding.
envision
could
improve
development
interaction
databases
deepen
understanding
complexes.
Язык: Английский