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References

inSPIRE Specific Papers

Please cite the following article if you are using inSPIRE in your research:

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 inSPIRE 2 and inSPIRE-Pathogen.

Tools used by inSPIRE

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 inSPIRE-affinity please also cite the relevant publications for NetMHCpan binding affinity predictions..

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

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