Advantages of timsTOF Pro in 4D DIA Proteomics Applications
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Acquisition of over 100 MS/MS spectra per second
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Sensitivity improved by more than tenfold
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Enables high-depth and high-speed data acquisition
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Improves peptide identification rates
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Enhances detection of low-abundance proteins
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Facilitates in-depth analysis of complex biological samples such as serum or tissues
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diaPASEF: The standard 4D DIA approach, ideal for high-depth exploratory proteomics
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Slice-PASEF: Designed for rapid screening of large sample cohorts
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g-diaPASEF: Integrates internal standards to enable absolute quantification
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Deep proteome coverage (>10,000 proteins per sample)
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High quantitative precision (CV < 15%, supports label-free absolute quantification)
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Customized experimental design and bioinformatics reports
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Rapid turnaround (within 7 working days)
With the ongoing advancements in biomedicine, pharmaceutical development, and precision medicine, proteomics technologies are increasingly transitioning from basic research to clinical applications. Among these, Data-Independent Acquisition (DIA) has gained significant traction in large-scale protein quantification due to its high throughput, excellent reproducibility, and low rates of missing data. However, conventional DIA approaches still face key limitations, such as substantial co-fragmentation interference and restricted identification capacity. The timsTOF Pro mass spectrometry platform developed by Bruker addresses these issues by incorporating a fourth analytical dimension, ion mobility spectrometry, thereby significantly enhancing DIA performance. In particular, its proprietary Parallel Accumulation–Serial Fragmentation (PASEF) technology enables a superior balance between proteome coverage, quantitative accuracy, and acquisition speed.
What is 4D DIA?
Traditional DIA collects data along three dimensions: mass-to-charge ratio (m/z), retention time (RT), and fragment ion intensity. In contrast, 4D DIA incorporates ion mobility (IM) as an additional dimension, resulting in a comprehensive four-dimensional data matrix: m/z – RT – IM – Intensity.
The Trapped Ion Mobility Spectrometry (TIMS) module integrated into the timsTOF Pro system allows gas-phase separation of ions based on their size and shape, substantially enhancing spectral resolution and improving the identification of peptides and proteins.
Core Technical Advantages of timsTOF Pro
1. Pasef Technology Enables Rapid Acquisition and Enhanced Sensitivity
While conventional DIA often compromises sensitivity for throughput, the PASEF technology of the timsTOF Pro overcomes this trade-off:
This allows researchers to obtain comprehensive and accurate protein quantification data without the need for extensive fractionation or repeated sample injections.
2. 4D Separation Enhances Spectral Clarity and Reduces Co-Fragmentation Artifacts
Ion mobility provides an orthogonal separation dimension that differentiates peptides with similar m/z values but distinct mobilities, thereby mitigating interference from co-isolated precursors:
3. Supports Diverse 4D DIA Workflows Tailored to Research Needs
Bruker, in collaboration with several software developers, offers a range of 4D DIA workflows optimized for the timsTOF platform:
MtoZ Biolabs: A One-Stop Provider of High-Quality Timstof-Based Proteomics Services
As a premium scientific service provider specializing in mass spectrometry and multi-omics technologies, MtoZ Biolabs has pioneered the deployment of the Bruker timsTOF Pro 2 platform. Coupled with internally optimized 4D DIA workflows and tailored data analysis strategies, the company delivers:
The integration of 4D DIA with timsTOF Pro unlocks unprecedented capabilities for comprehensive proteomic analysis. Its exceptional speed, resolution, and data quality position it as one of the most promising mass spectrometry platforms available. Researchers aiming to conduct high-throughput proteomics or delve into biomarker discovery and disease mechanism exploration are encouraged to consult MtoZ Biolabs for tailored solutions and expert support.
MtoZ Biolabs, an integrated chromatography and mass spectrometry (MS) services provider.
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