A simple tool extends TIMSTOF compatibility with historic data processing tools and enables ion mobility-enhanced spectral libraries
Orsburn, B. C.
Show abstract
Trapped ion mobility mass spectrometry is proving to be a disruptive technology in LCMS based proteomics. One primary drawback of this hardware is the lack of compatibility with the hundreds of data processing pipelines historically in use. This study describes a simple data conversion tool that "folds" the TIMSTOF ion mobility data into the MS2 fragmentation spectra allowing simple downstream processing. Little to no detriment in the assignment of peptide spectral matches is observed when "folding" the 1/k0 value into the low mass region. To demonstrate one utility of TIMS Folding, spectral libraries are provided in multiple common formats that were constructed from the same files both with and without folded ion mobility data. When new data is acquired and folded using the same parameters prior to data processing the folded ion mobility data can be used as an additional metric for peptide match confidence against folded spectral libraries.
Matching journals
The top 1 journal accounts for 50% of the predicted probability mass.
Similar papers in this journal
- Improved open modification searching via unified spectral search with predicted libraries and enhanced vector representations in ANN-SoLo 97%
- High sensitivity limited material proteomics empowered by data-independent acquisition on linear ion traps 96%
- Data-Driven Optimization of DIA Mass Spectrometry by DO-MS 96%
Similar papers in this journal
- ReCom: A semi-supervised approach to ultra-tolerant database search for improved identification of modified peptides 96%
- AA_stat: intelligent profiling of in vivo and in vitro modifications from open search results 95%
- A systematic evaluation of yeast sample preparation protocols for spectral identifications, proteome coverage and post-isolation modifications 95%
Similar papers in this journal
- MealTime-MS: A Machine Learning-Guided Real-Time Mass SpectrometryAnalysis for Protein Identification and Efficient DynamicExclusion 96%
- Ultraviolet Photodissociation of tryptic peptide backbones at 213 nm 96%
- Bolt: A new age peptide search engine for comprehensive MS/MS sequencing through vast protein databases in minutes. 95%
Similar papers in this journal
- Ultra-sensitive nanoLC-MS of sub nanogram protein samples using second generation micro pillar array LC technology with Orbitrap Exploris 480 and FAIMS PRO 96%
- Super-resolution mass spectrometry enables rapid, accurate, and highly-multiplexed proteomics at the MS2-level 96%
- Improved Sensitivity in Low-Input Proteomics using Micro-Pillar Array-based Chromatography 96%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.