Our Studies

This paper describes the development of the inSPIRE rescoring pipeline:

Cormican, J. A., Horokhovskyi, Y., Soh, W. T., Mishto, M., and Liepe, J. (2022) inSPIRE: An open-source tool for increased mass spectrometry identification rates using Prosit spectral prediction. Mol Cell Proteomics. (doi: doi.org/10.1016/j.mcpro.2022.100432)

Another article will soon be describing the development of PEPSeek.

Tools used within interact-ms

Please also cite the relevant publications of the rescoring tools used, see details on Percolator and Mokapot.

Please also cite the relevant publications of the spectral predictors, see details on Prosit.

If using binding affinity please also cite the relevant publications for NetMHCpan binding affinity predictions.

If using MSFragger via interact-ms, please also cite the relevant publications listed on the MSFragger github.

If you are uploading raw files, please also cite the ThermoRawFileParser.