synapter

The 'synapter' software tool addresses the impact of traveling wave ion mobility separation (TWIMS) on data-independent acquisition in qTOF mass spectrometry instruments, specifically the Synapt G2. By performing fragmentation post-TWIMS, the tool enables more accurate assignment of fragment ions to precursors in data-independent acquisition, leading to up to 60% higher proteome coverage and increased confidence in protein and peptide identifications. The application of TWIMS enhances separation, resulting in higher peak capacity and more precise quantitation of lower-intensity precursor ions. The tool also observes a reduction in detected ion current attributed to ion scattering and detector saturation during transfer into the high-pressure "IMS zone."