Protocols

Many of our protocols, mass spectrometer acquisition methods and data analysis scripts are freely available here and on the BMS Core Facility GitHub page.

The protocols listed below were tested in our facility and are working as written. We often update the protocols to improve certain aspects or based on the availability of reagents, so check back often to make sure you are using the most recent version. 

NOTE FOR ALL PROTOCOLS - where appropriate, refer to the health and safety guidelines of your own institution as well as the MSDS documents for the described chemicals before use. Some of the chemicals and objects used are dangerous and should be handled with caution.

Downloadable Protocols

Protein or Peptide Labelling

  • Protein labeling - Stable Isotope Labeling by Amino acids in Cell culture (SILAC) [PDF - 291 KB]
  • Peptide labeling - Tandem Mass Tag (TMT) [PDF - 263 KB]

Sample Processing for Mass Spectrometry

Mass Spectrometry Standards

  • Quality control standards for mass spectrometry acquisition [PDF - 319 KB]

Mass Spectrometer acquisition methods

Data analysis scripts