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Monash Biomedical Proteomics Facility



Mass spectrometry is one of the leading technologies to comprehensively identify and globally quantify proteins and other biomolecules in virtually every biological sample and environment. 

Due to its unparalleled sensitivity and accuracy, mass spectrometry is the method of choice for a plethora of applications ranging from biomarker discoveries to absolute quantifications of low abundant peptide species. 

Equipped with the latest mass spectrometric instrumentation, the Monash Biomedical Proteomics Facility (MBPF) combines cutting-edge technology with state-of-the-art methodology to provide the best possible results and expertise to customers and collaborators.


To provide academic and commercial researchers access to state-of-the-art proteomics technologies and expertise. 

Key instrumentation

Mass spectrometers

  • Orbitrap Fusion Tribrid (Thermo Scientific)​
  • 2x Q-Exactive Plus Hybrid Quadrupole - Orbitrap (Thermo Scientific)​
  • Q-Exactive Hybrid Quadrupole - Orbitrap (Thermo Scientific)
  • 2x TripleTOF 6600 (SCIEX)​
  • QTrap 6500 (SCIEX)​​
  • MicroTOFq (Bruker)
  • UltrafleXtreme MALDI TOF/TOF (Bruker) 

Off-line HPLC Systems 

  • LC 1100 Analytical System (Agilent Technologies)
  • LC 1200 Series Nano and Capillary (Agilent Technologies)
  • Ultimate 3000 Nano Systems (Thermo Scientific)

N-terminal sequencers​

  • ​PPSQ-53A Protein Sequencer (Shimadzu)
  • 2x Procise Protein Sequencer (Applied Biosystems)

Working with us / Certification

  • Collaborative research

    Our preferred way to engage with researchers and the community.

    This platform is run by highly qualified researchers who will provide state-of-the-art proteomics as well as intellectual input to improve any research.

    And the best thing: Collaborative engagements are even cheaper than fee-for-service projects.

  • Fee for Service

    Probably the way to go for many industries and profit organisations.

    Just send us your samples, let us know what you want us to do and we'll get back to you with the results.

  • Instrument access

    You are an expert in operating a mass spectrometer and just need instrument access?                                                                                     

    Well, there is a good chance you can become a "self-user" after doing several training sessions with us and then you can operate our mass spectrometers yourself!

  • Consultancies

    You are struggling to pinpoint which service or instrument will give you the outcome you need? Or you are not even sure whether our services might be useful to you and your project?

    Please make an enquiry; we are happy to help, consultations are free and available to anybody who is interested.

  • ISO9001 certification

    The Monash Biomedical Proteomics Facility is fully operating under the ISO9001 Quality Management System to meet current market best practises in management, efficiency and service.


  • Shotgun proteomics (protein/proteome identification)

    Identifies as many proteins in a sample as possible!

    Isolated proteins or even entire proteomes are proteolytically digested into peptides, which are subsequently fractionated and sequenced by liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS). This methodology can (i) identify interaction partners, (ii) verify polymorphisms and other mutations, (iii) analyse secreted proteins, (iv) reveal novel proteomes and (v) confirm the identity of purified proteins, synthesised peptides or gel bands.

  • N-terminal sequencing

    Provides the exact N-terminal amino acid sequence of any protein!

    N-terminal sequencing is an unequivocal sequencing method based on the Edman degradation chemistry which will confirm the identity of a protein, the exact N-terminus of a protein and can also be used to determine the purity of proteins.

  • Cross-linking mass spectrometry (CX-MS)

    Identifies interacting domains within proteins and protein complexes!

    Chemical cross-linker agents can be used to covalently link adjacent domains within proteins and protein complexes. Identifying the cross-linked domains/peptides by high-resolution mass spectrometry provides a powerful tool to reveal interacting regions of protein complexes and to model or verify the structure of proteins and their complexes. CX-MS can also be used to analyse naturally occurring crosslinks such as disulphide bridges.

  • Analysis of post-translational modifications (PTMs)

    Provides detailed information of any PTM of interest on a single or global protein level!

    The vast majority of all proteins are post-translationally modified with phosphorylation and glycosylation being the best-investigated PTMs. Mass spectrometry is one of the few techniques that allow the precise identification and quantification of virtually every PTM on a global proteomics scale. The availability of electron-transfer dissociation (ETD) on the recently acquired Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific) also enables us to unambiguously map the position of every PTM.

  • Intact mass determination/top-down proteomics

    Provides the exact mass of any molecule of interest!

    The determination of intact protein masses and their top-down fragments enables us to (i) analyse the exact size of proteins, (ii) confirm the presence of polymorphisms, PTMs, truncations or other mutations, and (iii) distinguish between protein isoforms and splice forms. We recently acquired an Orbitrap Fusion Tribrid mass spectrometer (Thermo Scientific), ideally suited for those kind of analyses due to its low pressure ‘protein mode’ combined with ultra-high resolution (up to 500,000 FWHM).





Don't be shy, just give us a call or drop us a line if you have any questions, inquiries or if you require a quote. 

We are looking forward to ​hearing from you!

  • Dr Ralf Schittenhelm

    +61 3 990 54324

  • Dr David Steer

    T +61 3 990 29323

  • Postal address

    Monash University
    Clayton Campus, Building 77, Level 2
    23 Innovation Walk
    Clayton VIC 3800

  • Delivery address

    Monash University
    SOBS Store, Ground Floor, Strip 3 
    23 Innovation Walk
    Clayton VIC 3800