Generic Calibration Transition Lists
Overview
OpenSWATH supports generic calibration transition lists in tab- or comma-separated value (TSV/CSV) and sqlite-based (PQP) formats. TargetedFileConverter is part of OpenMS and is available for Windows, macOS and Linux.
Contact and Support
For TargetedFileConverter, we provide support via the OpenMS support channels.
Spiked-in Biognosys iRT Kit
The Biognosys iRT kit [1] is a popular choice for retention time calibration. The kit contains 11 non-naturally occuring synthetic peptides optimized for stability, sensitivity and even retention time spacing over the productive gradient. The iRT peptides can be spiked into the sample and are used to calibrate the retention time of the assay library to the specific chromatographic setup. You can find a copy of the iRT peptide sequences and their corresponding iRT values in TSV or TraML
Conserved Eukaryotic Internal Retention Time (CiRT) Peptides
Parker et al. identified a set of peptide sequences (113) that are conserved across most common eukaryotic species, termed Common internal Retention Time (CiRT) standards [2]. These are useful peptides to use for retention time calibration if the synthetic spiked-in iRT kit was not used in your experiment. You can find a copy of the CiRT peptide sequences and their corresponding iRT values in TSV or TraML