与Paser一起运行并完成

PaSER 2022

PASER 2022是GPU驱动的实时数据库搜索平台,可为自下而上的蛋白质组学提供并行计算功率和实时数据库搜索结果。

立即结果!

实时结果=效率

Highlights

PaSER is efficiency and savings

实时结果告知您当前的仪器和样本状态

分析时间
数据库搜索需要时间,一旦完成后,就会以毫不妥协的搜索结果消除此步骤。
仪器的时间
确保每一分钟都计算,使用Paser,您可以确保您的乐器时间以最有意义的方式度过。
Precious Samples
Save those precious samples! Whether they are single cell, clinical, SILAC or enriched PTMs; PaSER’s smarts will make sure they are not wasted.
费用
Instrument time, reagents and sample preparation are costly. PaSER and Run & Done will save money because you are assured you are producing meaningful data.

Eigenschaften

PaSER 2022

具有实时搜索结果和明智的收购的4D-Potomosics™

通过集成Paser提供的实时数据库搜索和智能获取来打破数据分析瓶颈

普遍可用

  • 所有当前和未来的Timstof Pro和Flex平台都是可访问的Paser

4D-Proteomics™

  • CCS-aware data is rich, even so real-time database search capabilities are a reality with PaSER including with PTMs like phosphorylation

与GPU功率的大规模平行化

  • Paser是GPU驱动的,在数千个CUDA核心上提供了巨大的计算功率

Paser数据审查

  • 从高级实验信息到特定的片段离子光谱,从所有PASER盒上的集成查看器信心查看您的数据的复杂细节到特定的片段离子光谱
Smarts
  • PASER很聪明,在样品采集结束时用户定义的蛋白质或肽的资格决定了样品队列的进展,这可以检查适用性,节省珍贵的样品,昂贵的消耗品和仪器时间

涡流

PaSER 2022

节省时间和成本

  • 不再担心注入那些珍贵的样品。
  • No more worrying of wasted instrument time.
  • No more worrying about those samples with expensive reagents and sample prep, only to inject on a poor performing system.
  • 不再等待QC运行以确定系统适用性。
  • No more waiting for search results during method development.

安温登根

PaSER 2022

TimScore™ - 被利用的机器学习和CCS,以获得更好的FDR

TIMSCORE通过为真4D-蛋白质组启用CCS维度提供了最大数量的PSM,肽和蛋白质识别。

The PaSER search algorithm is run as normal, combined with comparison of the predicted and measured CCS values and calculating a TIMScore for the top 5 peptide candidates for each spectra. The TIMScore benefit is realized during the peptide-validation and False Discovery Rate (FDR) estimation steps. In a non CCS-enabled algorithm, only two dimensions can be utilized to estimate the FDR rate, and so a discriminate line is fit to a 1% error (Panel A) to distinguish forward and reverse peptide candidates. With TIMScore, and the extra CCS dimension, the peptide-candidates can be vectorized in 3 dimensions (Panel B) allowing a discriminate contoured plane to be applied to achieve the same 1% error. Applying a discriminate plane provides increased accuracy and precision, helping to validate formerly poorly scoring PSMs in the standard two dimensions.



PaSER 2022

DIA-PASEF工作流简化了带有Tims Dia-nn的Paser

PaSER 2022 is capable of processing dia-PASEF workflows utilizing a customized version of the popular DIA-NN (DIA by Neural Networks) software from the Lilley, Rasler and Demichev labs. TIMS DIA-NN enables reliable, robust, and quantitatively accurate large-scale experiments. PaSER utilizes the same stream mechanism for dia-PASEF workflows, streaming in real-time MS and DIA frames from the acquisition PC to the PaSER box. These dia-PASEF data are processed and stored on the PaSER box. At the end of the acquisition a spectral library search is triggered, and the results recorded. TIMScore powered DDA search results can be easily utilized to build spectral libraries or spectral libraries can be imported from other popular tools. At the end of the project the users can trigger match-between-runs analysis to view a quantitative profile across projects. This provides users an integrated environment for PASEF and dia-PASEF data analysis.

Y-axis are counts and X-axis is total K562 peptide loaded on column in nanograms. The gradient length was 35 minutes, supporting 30 samples per day with all experiments performed on a timsTOF Pro 2.

“我们与布鲁克的持续合作量身定制DIA-NN

CCS焦点的DIA-PASEF数据的处理工具确实已经存在

有益。它简化并加速了识别和量化

甚至在非常短的梯度中,成千上万的蛋白质。我们很高兴

在我们与布鲁克的密切合作中,供应商集成版本

of DIA-NN called TIMS DIA-NN now becomes part of the PaSER bioinformatics

平台。”

德国柏林Charité的爱因斯坦生物化学教授Markus Ralser博士教授

PaSER 2022

不到5 ms的全面数据库搜索

搜索速度毫不妥协的搜索结果。

A)使用Paser进行实时结果的人类细胞裂解物的重复DDA运行的蛋白质ID,并针对最大值进行基准测试

b)使用PASER进行实时结果的人类细胞裂解物的重复DDA运行的肽ID,并针对最大值进行基准测试

c)抑郁剂和最大蛋白质中的97%和近90%的相同肽。

Paser提供了从实时搜索获得的一致结果,与对相同数据的离线搜索相同。由于数据库搜索算法是在GPU上运行的,因此与基于CPU的搜索相比,搜索时间可以忽略不计。

除了实时搜索外,还可以在包括肽组研究在内的特定应用程序中搜索更大的空间,也将成为现实。针对DDA搜索中的黄金标准的PASER基准测试表现出色或更好。

PaSER 2022

看看你一直缺少什么

TIMS Viz provides the powerful ability to view 4-D proteomics data like never seen before. The mobility separation and focusing upstream from the quadrapole and TOF result in the separation of isobaric and near isobaric species. Using other technologies and in the case of PTM enrichments and the analysis of complex samples it is common that co-eluting species that are isobaric or near isobaric in mass co-fragment. The timsTOF Pro/flex obviates this by first separating ions by their collisional cross section. The ability to visualize, search and sort on such events has never been available before. We term isobaric masses with different mobility values mobility offset mass aligned (MOMA), and TIMS Viz can tease such events out within complex runs. TIMS Viz allows you to set tolerances to your discretion while simultaneously overlaying both features and PSMs that were observed post database search. TIMS Viz enables you to view what you never knew was there before.

Webinare

PaSER 2022

视频

meinungen

“我们的Timstof Pro上的Paser Box提供的实时结果一直很节省。这使我们能够实时开发方法,告知LC和仪器性能,并在效率上总体上提高。”

西巴stian Vaca, PhD, Research Scientist, Proteomics Platform at the Broad Institute of MIT and Harvard (Carr Lab), Cambridge, USA

“Innovative software tools are a necessity to address unanswered biological questions with mass spectrometry. The trapped ion mobility functionality and the robustness of the timsTOF Pro offer unique bottom-up proteomics capabilities that can be effectively used to study many diseases.”

Professor John Yates III, the Ernest W. Hahn Professor at The Scripps Research Institute in La Jolla, California