Proteomics

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Investigating Reporter Ion Signal Characteristics in Isobaric Mass Tag Proteome Quantification Experiments

ABSTRACT: In this study we sought to examine the characteristics of the reporter ion signal obtained using current generation OT-based MS hardware. We initially focus on re-analysis of a previous experiment where TMT was using in combination with OT-MS3 to study protein expression diversity between histotypes of ovarian carcinoma where the presence of a notch – a region with no reported values – was observed in the reporter ion signal distributions.

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: PXD005892 | Pride | 2017-04-26

REPOSITORIES: pride

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ch_Dec2016_SM-1-1_Spike-6-2_TMT6_OT-MS3_conc_1000ng.mzML Mzml
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ch_Dec2016_SM-1-1_Spike-6-2_TMT6_OT-MS3_conc_1500ng.mzML Mzml
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Publications

Evaluating the Characteristics of Reporter Ion Signal Acquired in the Orbitrap Analyzer for Isobaric Mass Tag Proteome Quantification Experiments.

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

Journal of proteome research 20170420 5

Multiplexed quantification with isobaric chemical tags (e.g., TMT, iTRAQ) provides a robust and efficient means to comparatively examine proteome dynamics between several biological states using a mass spectrometer (MS). The quantitative nature of isobaric tags necessitates strict validation of the observed ion signals in the chosen MS detector before differential patterns are extracted between biological states. We present an in-depth analysis of isobaric tag data acquired on current generation  ...[more]

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