TimstofPro powered by PASEF


The timsTOF Pro with PASEF® technology delivers revolutionary improvements in scan speed, with enhanced specificity and high sensitivity


TIMS adds 4th dimension of separation


Najważniejsze informacje



With Parallel Accumulation Serial Fragmentation (PASEF) technology >100 Hz sequencing speed can be achieved.
High throughput
Extremely high data acquisition speed increases the throughput of biological experiments significantly.
The unique instrument design with orthogonal reflection into TIMS enables routine operation over thousands of samples without instrument cleaning.

Cechy charakterystyczne

TimstofPro powered by PASEF

4D -Pototomics™的新标准 - 更深入地挖掘蛋白质组

Mass spectrometry (MS)-based proteomics has become a powerful technology for the identification and quantification of thousands of proteins. However, the coverage of complete proteomes is still very challenging due to the limited speed, sensitivity and resolution of current mass spectrometers.

The timsTOF Pro uses the Parallel Accumulation Serial Fragmentation (PASEF®) acquisition method to provide extremely high speed and sensitivity to reach new depths in shotgun proteomics and phosphoproteomics, using low sample amounts.

TimstofPro powered by PASEF



Achieve near 100% duty cycle for shotgun proteomics
A near 100% duty cycle for high sensitivity, high speed shotgun proteomics can now be achieved with the dual TIMS technology. The novel design allows for ions to be accumulated in the front section, while ions in the rear section are sequentially released depending on their ion mobility. This process is called Parallel Accumulation Serial Fragmentation, or PASEF®.

Parallel accumulation serial fragmentation (PASEF®). PASEF® strategy in a timsTOF Pro instrument where ions are accumulated while the second TIMS region is serially eluting peptide species.
TimstofPro powered by PASEF

Outstanding hardware performance


In the timsTOF Pro an advanced segmented quadrupole mass filter is used for high ion transmission and isolation efficiency. The quadrupole mass position is synchronized with the elution times of the specific ions from the TIMS analyzer. Due to its ultra-high mass position switching time (< 1 ms) it enables the best performance for the PASEF®method.

Schematic of the timsTOF Pro
TimstofPro powered by PASEF


Parallel Accumulation Serial Fragmentation (PASEF®) cycle time: By synchronizing the quadrupole with the TIMS elution time, an average of 12 precursors can be fragmented within a 100 ms time scale. Intelligent software targets low-level precursors multiple times for PASEF® MS/MS fragmentation.

With speed in mind, Bruker experts redesigned MS/MS technology to meet the requirements of shotgun proteomics. Peptide ions are separated using trapped ion mobility spectrometry, eluted (~ 100 ms) and detected in the QTOF, generating the TIMS MS heat map. In the PASEF®method the same TIMS separation is used with the quadrupole isolating a certain ion species during its elution and immediately shifting to the next precursor. Parent and fragment spectra are aligned by mobility values. With the Parallel Accumulation Serial Fragmentation (PASEF®) Technology >100 Hz sequencing speed can be achieved. With the PASEF®方法可以通过选择多次来增加低丰富肽的MS/MS光谱质量。

The timsTOF Pro powered by PASEF®提供测序速度> 100 Hz而不会失去灵敏度或分辨率。这是通过将四极隔离质量窗口与来自TIMS漏斗的特定肽包装的洗脱时间同步的。


TimstofPro powered by PASEF

Superior robustness, no cleaning required

The only PASEF®-enabled mass spectrometer
布鲁克(Bruker)在2016年推出了TIMS(被困的离子移动光谱法)技术,作为一种革命性的离子移动技术,在极其紧凑的设备中实现了前所未有的离子迁移率分辨率。第二代双TIMS分析仪现在启用PASEF®(Parallel Accumulation Serial Fragmentation) that is setting new standards of uncompromised speed, sensitivity and resolution for shotgun proteomics.

Superior robustness, no cleaning required
许多女士struments used for shotgun proteomics require biweekly or monthly cleaning when run 24 hours a day on large sample cohorts, and performance degradation is noticeable over even shorter time periods. The superior robustness of the timsTOF Pro means that the instrument can be run 24/7 over many days or weeks without noticeable loss of sensitivity or other performance metrics.

TimstofPro powered by PASEF

PaSER Run & Done - Uncompromised data processing on the fly

The timsTOF Pro allows the analysis of hundreds of samples with minimal sample load (<200 ng) at sequencing speeds exceeding 100 Hz. All of this with uncompromised proteomic depth. This has changed the way proteomics is done, but it also unleashes a new constraint - data analysis. Modern researchers must process hundreds of samples of information dense content with the timsTOF Pro. For most pipelines this creates a bottleneck at the data analysis step. Bruker is innovating this step by introducing real-time database search capabilities called PaSER (Parallel database Search Engine in Real-time) which removes the data analysis hurdle. Using PaSER, as soon as a LC-MS run is completed, results are in hand or Run & Done.

TimstofPro powered by PASEF

Digging into the 4th dimension

MaxQuant/Perseus and PEAKS Studio data processing
An open-file data format allows researchers to work directly with the raw data and use industry leading software. MaxQuant has been adapted to manage 4-dimensional (4D) features in the space spanned by retention time, ion mobility,

mass, and signal intensity which benefit the identification and quantification of peptides, proteins, and posttranslational modifications. PEAKS Studio combines de novo sequencing with traditional database searches and is optimized for processing timsTOF raw data.


TimstofPro powered by PASEF

Re-defining proteomics throughput and sensitivity

Deep proteome coverage with short gradients (30 min, 60 min and 90 min) using 100 ng of HeLa digest
被困的离子迁移率光谱法(TIM)和平行积累序列碎片的组合功率(Pasef®)允许更大的蛋白质组或亚蛋白质组(例如磷酸蛋白酶)覆盖率,而无需大量样品量(通常是柱状的1-4 µg肽混合物)经常用于蛋白质组学。
Superior results can be obtained from less than 200 ng sample load, therefore reducing both sample preparation costs and MS maintenance frequency. Using a 90 min gradient length more than 5400 protein groups can be identified from a typical human cell line lysate. The timsTOF Pro can also deliver reproducible quantitative information from smaller amounts of highly complex mixtures.

TimstofPro powered by PASEF

Latest timsTOF Pro Application Notes

prm-PASEF®: enabling high-throughput, high sensitivity targeted proteomics
Enabling high-throughput, high sensitivity targeted proteomics. The prm-PASEF®acquisition method has been developed to translate the advantages of the parallel accumulation serial fragmentation (PASEF®)获取靶向蛋白质组学领域的获取策略。

Proteomic Interrogation of Primary Insulin-secreting Pancreatic β-cells
The combination of integrated ion mobility with warp-speed MS/MS acquisition on the timsTOF Pro paves the way for deep, molecular level understanding of β-cell physiology and potential new targetable pathways for diabetes.

高吞吐量4D-蛋白质组™ - DIA-PASEF的应用®和Evosep One用于短梯度
The timsTOF Pro offers a combination of two unique technologies, namely a 4th dimension provided by Trapped Ion Mobility Spectrometry (TIMS) to enhance ion separation and sensitivity and Parallel Accumulation Serial Fragmentation (PASEF®)
to improve ion utilization efficiency and data acquisition speed.



"We now know that the peptide mixtures are still extremely complex when analyzing them in two dimensions (retention time and m/z). Adding one more dimension should in principle get us a long way ahead. In addition to the additional dimension of separation, the timsTOF Pro gives us extremely high speed and sensitivity to get deeper into the proteome and using less sample material.”

Prof. Dr. Matthias Mann, Director Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Germany

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