SWATH is a novel measurement technique that monitors fragment ions over a large precursor m/z range with a high resolution in time (typically a few seconds cycle time). The resulting measurements can be analyzed similarly to MRM experiments. The advantage of SWATH is that in a single run a large number of peptides can be measured in a targeted fashion. Biognosys contributed in developing the strategy to analyze SWATH data as pseudo-MRM with mQuest/mProphet [1].

Biognosys has been awarded a federal grant of CHF 1.5m to further develop this technology with the inventor Ruedi Aebersold at the ETH Zurich.

Pedro Navarro¹; Ludovic Gillet¹; Stephen Tate²; Oliver Rinner³; Lukas Reiter³; Jie Nan¹; Ron Bonner²; Ruedi Aebersold¹  An extended bioinformatics pipeline for the high-throughput SRM-like analysis of data generated upon swath MS data independent acquisition ASMS 2011

Ludovic C. Gillet¹, Pedro Navarro¹, Stephen Tate², Hannes Roest¹, Nathalie Selevsek¹, Lukas Reiter³, Ron Bonner², and Ruedi Aebersold¹ Targeted data extraction of the MS/MS spectra generated by data independent acquisition: a new concept for consistent and accurate proteome analysis Mol Cell Proteomics 2012, mcp.O111.016717.

 Affiliations:
¹ IMSB - ETH, Zürich, Switzerland; ² AB SCIEX, Concord, ON; ³ Biognosys AG, Zürich, Switzerland 

[1] Reiter L, Rinner O, Picotti P, Huttenhain R, Beck M, Brusniak MY, Hengartner MO, Aebersold R: mProphet: automated data processing and statistical validation for large-scale SRM experiments. Nature methods 2011, 8(5):430-435.