A review on mass spectrometry-based quantitative proteomics:
Targeted and data independent acquisition

J 2017

A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition

VIDOVÁ, Veronika a Zdeněk SPÁČIL

Základní údaje

Originální název

A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition

Autoři

VIDOVÁ, Veronika (203 Česká republika, domácí) a Zdeněk SPÁČIL (203 Česká republika, garant, domácí)

Vydání

Analytica Chimica Acta, Amsterdam, Elsevier Science publishers, 2017, 0003-2670

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10406 Analytical chemistry

Stát vydavatele

Nizozemské království

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 5.123

Kód RIV

RIV/00216224:14310/17:00097721

Organizační jednotka

Přírodovědecká fakulta

DOI

http://dx.doi.org/10.1016/j.aca.2017.01.059

UT WoS

000398434700002

Klíčová slova anglicky

Targeted quantitative proteomics tutorial; Selected/multiple reaction monitoring (SRM/MRM); Parallel reaction monitoring (PRM); Tandem mass spectrometry (MS/MS); Data independent acquisition (DIA)

Štítky

NZ, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 27. 3. 2018 21:42, Ing. Nicole Zrilić

Anotace

V originále

Mass spectrometry (MS) based proteomics have achieved a near- complete proteome coverage in humans and in several other organisms, producing a wealth of information stored in databases and bioinformatics resources. Recent implementation of selected/multiple reaction monitoring (SRM/MRM) technology in targeted proteomics introduced the possibility of quantitatively follow-up specific protein targets in a hypothesis-driven experiment. In contrast to immunoaffinity-based workflows typically used in biological and clinical research for protein quantification, SRM/MRM is characterized by high selectivity, large capacity for multiplexing (approx.200 proteins per analysis) and rapid, cost-effective transition from assay development to deployment. The concept of SRM/MRM utilizes triple quadrupole (QqQ) mass analyzer to provide inherent reproducibility, unparalleled sensitivity and selectivity to efficiently differentiate isoforms, post-translational modifications and mutated forms of proteins. SRMlike targeted acquisitions such as parallel reaction monitoring (PRM) are pioneered on high resolution/accurate mass (HR/AM) platforms based on the quadrupole-orbitrap (Q-orbitrap) mass spectrometer. The expansion of HR/AM also caused development in data independent acquisition (DIA). This review presents a step-by-step tutorial on development of SRM/MRM protein assay intended for researchers without prior experience in proteomics. We discus practical aspects of SRM-based quantitative proteomics workflow, summarize milestones in basic biological and medical research as well as recent trends and emerging techniques.

Návaznosti

EF15_003/0000469, projekt VaV

Název: Cetocoen Plus

LM2015051, projekt VaV

Název: Centrum pro výzkum toxických látek v prostředí (Akronym: RECETOX RI)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, Výzkumná infrastruktura RECETOX

Citovat

VIDOVÁ, Veronika a Zdeněk SPÁČIL. A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition. Analytica Chimica Acta. Amsterdam: Elsevier Science publishers, 2017, roč. 964, April, s. 7-23. ISSN 0003-2670. Dostupné z: https://dx.doi.org/10.1016/j.aca.2017.01.059.

@article{1391004,
   author = {Vidová, Veronika and Spáčil, Zdeněk},
   article_location = {Amsterdam},
   article_number = {April},
   doi = {http://dx.doi.org/10.1016/j.aca.2017.01.059},
   keywords = {Targeted quantitative proteomics tutorial; Selected/multiple reaction monitoring (SRM/MRM); Parallel reaction monitoring (PRM); Tandem mass spectrometry (MS/MS); Data independent acquisition (DIA)},
   language = {eng},
   issn = {0003-2670},
   journal = {Analytica Chimica Acta},
   title = {A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition},
   url = {https://www.sciencedirect.com/science/article/pii/S0003267017301502?via%3Dihub},
   volume = {964},
   year = {2017}
}

TY  - JOUR
ID  - 1391004
AU  - Vidová, Veronika - Spáčil, Zdeněk
PY  - 2017
TI  - A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition
JF  - Analytica Chimica Acta
VL  - 964
IS  - April
SP  - 7-23
EP  - 7-23
PB  - Elsevier Science publishers
SN  - 00032670
KW  - Targeted quantitative proteomics tutorial
KW  - Selected/multiple reaction monitoring (SRM/MRM)
KW  - Parallel reaction monitoring (PRM)
KW  - Tandem mass spectrometry (MS/MS)
KW  - Data independent acquisition (DIA)
UR  - https://www.sciencedirect.com/science/article/pii/S0003267017301502?via%3Dihub
L2  - https://www.sciencedirect.com/science/article/pii/S0003267017301502?via%3Dihub
N2  - Mass spectrometry (MS) based proteomics have achieved a near- complete proteome coverage in humans and in several other organisms, producing a wealth of information stored in databases and bioinformatics resources. Recent implementation of selected/multiple reaction monitoring (SRM/MRM) technology in targeted proteomics introduced the possibility of quantitatively follow-up specific protein targets in a hypothesis-driven experiment. In contrast to immunoaffinity-based workflows typically used in biological and clinical research for protein quantification, SRM/MRM is characterized by high selectivity, large capacity for multiplexing (approx.200 proteins per analysis) and rapid, cost-effective transition from assay development to deployment. The concept of SRM/MRM utilizes triple quadrupole (QqQ) mass analyzer to provide inherent reproducibility, unparalleled sensitivity and selectivity to efficiently differentiate isoforms, post-translational modifications and mutated forms of proteins. SRMlike targeted acquisitions such as parallel reaction monitoring (PRM) are pioneered on high resolution/accurate mass (HR/AM) platforms based on the quadrupole-orbitrap (Q-orbitrap) mass spectrometer. The expansion of HR/AM also caused development in data independent acquisition (DIA). This review presents a step-by-step tutorial on development of SRM/MRM protein assay intended for researchers without prior experience in proteomics. We discus practical aspects of SRM-based quantitative proteomics workflow, summarize milestones in basic biological and medical research as well as recent trends and emerging techniques.
ER  -

VIDOVÁ, Veronika a Zdeněk SPÁČIL. A review on mass spectrometry-based quantitative proteomics: Targeted and data independent acquisition. \textit{Analytica Chimica Acta}. Amsterdam: Elsevier Science publishers, 2017, roč.~964, April, s.~7-23. ISSN~0003-2670. Dostupné z: https://dx.doi.org/10.1016/j.aca.2017.01.059.

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