Mass Spectrometry

Mass Spectrometry Facility Manager Val Valova in the control seat.

Mass spectrometry (MS) is the most rapid and sensitive approach available for protein identification and characterisation.

Proteins are the products of our genes and the working components of our cells. The rapid identification of unknown proteins is crucial to advancing our understanding of human biology and increasing our potential to treat disease.

Mass spectrometers measure molecular mass by scrutinizing the motion of molecules when ionized in an electric field. Molecular mass is a key property that can be used to aid the identification of all biological and non-biological materials.

CMRI has taken an early lead in utilising the wealth of data generated by the Human Genome Project and other genome projects by establishing a Mass Spectrometry and Functional Proteomics Facility (MSFPF). This facility enables the identification of hundreds of proteins in a matter of hours or days compared to years of work for the characterisation of a single protein just a decade ago.

Mass Spectrometry and Functional Proteomics Facility at the CMRI
Policy, Procedures and Instrumentation
Submission Form (for registered users)
The principles of protein identification and characterisation
Frequently Asked Questions
Mass spectrometry projects at CMRI

Mass Spectrometry and Functional Proteomics Facility at the CMRI

The MSFPF at CMRI was opened in 2001 and is managed by the Cell Signalling Unit. The two mass spectrometers (MALDI-TOF and quadrupole-TOF) in the Facility are supported by CMRI funding. The facility is a collaborative research resource that combines applied proteomics with the development of new and improved methods for protein identification and characterisation. The facility supports research that applies the tools of mass spectrometry and proteomics to biomedical science and is used extensively within the CMRI and in collaboration with scientists from the Westmead Research Hub, as well as with groups and individuals from around Australia and the world.

The successful identification of proteins of interest depends largely on the design of the experiment and requires a great deal of strategic consideration and careful planning. Our vision is to take the mystery out of proteomics and introduce it to a number of research groups and individuals by offering access to our equipment, methodology and expertise in the strategic planning of mass spectrometry experiments.

All prospective users should contact the Facility Manager, Val Valova, or the Facility Director, Dr Phil Robinson, to discuss their individual project requirements. Users are encouraged to collaborate to ensure the success of their project. Please first read our Policy, Procedures and Instrumentation document.

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Policy, Procedures and Instrumentation

Download PDF

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Submission Form (for registered users)

Proceed to Online Form

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The principles of protein identification and characterisation

Protein identification by peptide mass mapping
Protein identification by peptide sequencing
Characterisation of post-translational modifications

Refer to sample preparation methods for more information.

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Frequently asked questions

Q: What is wrong with my sample?

A: Most likely the problem lies in a poor sample preparation. That can include poor gel quality, insufficient sample, poor digestion or insufficient peptide recovery. Refer to our sample preparation methods for details.

Q: Why was my sample identified as human keratin?

A: Keratin is a major source of contamination. Particular care should be taken at all stages of sample preparation to avoid contamination from skin, hair and dust. Refer to our sample preparation methods for details.

Q: What is a polymer contamination?

A: There are compounds of a special concern in mass spectrometry, such as Glycerol, PEG, ionic (e.g. SDS) and non-ionic (e.g. Triton X-100) detergents. All of these ionize exceptionally well, especially PEG, and if present have detrimental effect on the spectra. Avoid GLAD® Cling Wrap, Parafilm® M, screw-cap micro tubes, coloured plastic ware.