Comparison of targeted proteomics approaches for detecting and quantifying proteins derived from human cancer tissues

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00209805%3A_____%2F17%3A00077933" target="_blank" >RIV/00209805:_____/17:00077933 - isvavai.cz</a>

Alternative codes found

RIV/67985904:_____/17:00475939 RIV/00216224:14310/17:00095603

Result on the web

<a href="https://onlinelibrary.wiley.com/doi/abs/10.1002/pmic.201600323" target="_blank" >https://onlinelibrary.wiley.com/doi/abs/10.1002/pmic.201600323</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1002/pmic.201600323" target="_blank" >10.1002/pmic.201600323</a>

Result language

angličtina

Original language name

Comparison of targeted proteomics approaches for detecting and quantifying proteins derived from human cancer tissues

Original language description

Targeted mass spectrometry-based proteomics approaches enable the simultaneous and reproducible quantification of multiple protein analytes across numerous conditions in biology and clinical studies. These approaches involve e.g. selected reaction monitoring (SRM) typically conducted on a triple quadrupole mass spectrometer, its high-resolution variant named pseudo-SRM (p-SRM), carried out in a quadrupole coupled with an TOF analyzer (qTOF), and &quot;sequential window acquisition of all theoretical spectra&quot; (SWATH). Here we compared these methods in terms of signal-to-noise ratio (S/N), coefficient of variance (CV), fold change (FC), limit of detection and quantitation (LOD, LOQ). We have shown the highest S/N for p-SRM mode, followed by SRM and SWATH, demonstrating a trade-off between sensitivity and level of multiplexing for SRM, p-SRM, and SWATH. SRM was more sensitive than p-SRM based on determining their LOD and LOQ. Although SWATH has the worst S/N, it enables peptidemultiplexing with post-acquisition definition of the targets, leading to better proteome coverage. FC between breast tumors of different clinical-pathological characteristics were highly correlated (R2&gt;0.97) across three methods and consistent with the previous study on 96 tumor tissues. Our technical note presented here, therefore, confirmed that outputs of all the three methods were biologically relevant and highly applicable to cancer research.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10608 - Biochemistry and molecular biology

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2017

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Proteomics

ISSN

1615-9853

e-ISSN

—

Volume of the periodical

17

Issue of the periodical within the volume

5

Country of publishing house

US - UNITED STATES

Number of pages

6

Pages from-to

1600323

UT code for WoS article

000397390800006

EID of the result in the Scopus database

2-s2.0-85013414422