Poster Presentation AUS-oMicS 2025

Label-free quantitation of proteins and peptides using ZT Scan DIA (121232)

Patrick Pribil 1 , Mohammadreza Dorvash 2 , Anthony Purcell 2 , Ihor Batruch 1 , Justin Lim 3
  1. SCIEX, Canada
  2. Monash University, Melbourne, Victoria, Australia
  3. SCIEX, Singapore

The goal of proteomics is the quantitative characterization of proteins in biological systems and the correlation of changes in protein abundance to mechanisms of disease. Mass spectrometry-based proteomics is capable of characterizing proteins not only qualitatively but quantitatively as well. Data-independent analysis (DIA) is a commonly-used technique towards this end (1,2). Instrumentation and workflow innovations are needed to enable easier, faster, deeper and more sensitive quantitative identifications of proteins and peptides. ZT Scan DIA is a novel technique that employs a continuously scanning quadrupole to isolate precursor ions for fast, sensitive, time-of-flight (TOF) detection (3,4). In this work, ZT Scan DIA system was used for the label-free quantitation (LFQ) of complex lysate digests mixed at different ratios and analyzed at different on-column loadings. Fast microflow chromatographic separation was employed, using varying active gradient lengths. The resulting data was analyzed using DIANN software. The results show improvements in the precision and accuracy for LFQ using ZT Scan DIA compared to traditional discrete-window DIA methods. Collectively, these results highlight the effectiveness of ZT Scan DIA (using easy-to-set-up methods) for highly accurate quantitation of proteins, providing higher confidence to researchers for disease biomarker discovery.

 

  1. Flexibility, speed, and throughput for high proteome coverage using Zeno SWATH data-independent acquisition (DIA) coupled with the Evosep One system. SCIEX technical note, RUO-MKT-02-15461.
  2. Pushing the boundaries of sensitivity and depth-of-coverage for nanoflow proteomics. SCIEX technical note, MKT-29730-A.
  3. Continuing the data independent acquisition (r)evolution: Introducing ZT Scan DIA for quantitative proteomics. SCIEX technical note, MKT-31731-A.
  4. Improved proteomics performance at high throughput using ZT Scan DIA on the ZenoTOF 7600+ system, SCIEX technical note, MKT-32367-A