Dataset Information

Improving Mass Spectrometer Acquisition when using Tandem MS/MS/MS Scanning with Isobaric Tags

ABSTRACT: n this work we utilize a standard, high-complexity Human cell line tryptic digest combined with a synthetic peptide library to systematically evaluate the properties of a variety of MS operation modes and detector configurations for the optimal examination of isobaric-tagged peptide mixtures. We demonstrate that despite the ability of the IT to yield more rapid MS3 scanning, the benefit in peptide and protein identifications when examining complex mixtures is minor while the negative impact on quantification precision is significant.

INSTRUMENT(S): Orbitrap Fusion ETD

ORGANISM(S): Yarrowia Lipolytica (candida Lipolytica) Homo Sapiens (human) Ralstonia Eutropha Jmp134

SUBMITTER: Christopher Hughes

LAB HEAD: Gregg Morin

PROVIDER: PXD005890 | Pride | 2017-04-26

REPOSITORIES: pride

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Dataset's files

Source:

			Action	DRS
	ch_19Jan2017_SM-1-1_Sp-6-2_CID-IT-MS3_Normal_1.raw	Raw
	ch_19Jan2017_SM-1-1_Sp-6-2_CID-IT-MS3_Normal_1_MSMSSpectrumInfo.txt	Txt
	ch_19Jan2017_SM-1-1_Sp-6-2_CID-IT-MS3_Normal_1_PSMs.txt	Txt
	ch_19Jan2017_SM-1-1_Sp-6-2_CID-IT-MS3_Normal_1_Proteins.txt	Txt
	ch_19Jan2017_SM-1-1_Sp-6-2_CID-IT-MS3_Normal_1_QuanSpectra.txt	Txt

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Publications

Investigating Acquisition Performance on the Orbitrap Fusion When Using Tandem MS/MS/MS Scanning with Isobaric Tags.

Hughes Christopher S CS Spicer Victor V Krokhin Oleg V OV Morin Gregg B GB

Journal of proteome research 20170420 5

Methods for isobaric-tagged peptide analysis (e.g., TMT, iTRAQ), such as the synchronous precursor selection (SPS) tandem MS/MS/MS (MS<sup>3</sup>) approach, enable maintenance of reporter ion accuracy and precision by reducing the ratio compression caused by coisolated precursor ions. However, the decreased throughput of the MS<sup>3</sup> approach necessitates careful optimization of acquisition strategies and methods to ensure maximal proteome coverage. We present a systematic analysis of acq ...[more]

PMID: 28418257

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