About us

About us

The Australian Proteome Analysis Facility (APAF), located within the Department of Molecular Sciences at Macquarie University, provides academic and corporate clients with modern functional proteomics and protein chemistry tools integrated with in-house and commercial bioinformatics toolkits. The facility has a mixed portfolio of activity including contract analysis, collaborative applied and fundamental research, and technology development to industry, government and the research community.

APAF is proud to be integrated with Macquarie University where the concept of proteome was defined and the term coined by Marc Wilkins (current advisory board member of APAF) in 1994. APAF has been a leader in developing proteomic technologies for over 20 years, with funding supported from the Australian Government’s National Collaborative Research Infrastructure Strategy (NCRIS) since 2007. NCRIS support, along with BioPlatform Australia (BPA), drives the main objectives of APAF to advance education of and coordinate research activities in `omics sciences including genomics, proteomics, metabolomics and bioinformatics at various nodes across Australia. APAFs current funding with BPA (NCRIS) is in renewal for the 2018/19 period.

The Four Fold Mission of APAF is to (1) provide both cutting edge affordable proteomic, and protein characterization services with a rapid turnaround time, (2) provide education, training and support to clients and collaborators in order to design and tailor proteomics experiments and analyse/interpret the data for publications and grant proposals, (3) offer a proof of concept small scale experiments with a minimum fee service (an excellent approach for generating preliminary data for grant applications), and (4) continually innovates on existing technologies.

APAF provides high throughput, quality, national and international proteomics and protein chemistry research services in both fee-for-service as well as collaborative models. The facility houses 16 high mass resolution mass spectrometers including and Orbitrap Elite, 2 x Q-Exactive, 2 x Q-Exactive Plus, 1 Q-Exactive HFX, 2 x Triple TOF6600, 2 x Triple TOF 5600, 2  Edman sequencers and 3 amino acid analysers. This high-end infrastructure is supported by the scientific and technical expertise of 12 highly trained scientists including a scientific director, four leads scientists and nine technical officers. These scientists, technologists and informaticians possess a broad range of experience from biological application in the fields of neurosciences, cancer research, agricultural research, diagnostics development, analytical chemistry, small molecules and biotech development facilitate.

APAF’s multidisciplinary team and instrumentation resources allow it to serve the community across diverse research disciplines and provide a range of services, including sample preparation, biochemical separations, mass spectrometry-based quantitative proteomic profiling, biomarker discovery, targeted proteomics, quantitative analysis of post-translational modifications, and protein-protein interaction analysis, all of which can be performed for a wide variety of organisms. In addition, we are one of the few proteomic core facilities in the country/world to offer Amino Acid analysis and Edman Sequencing, currently with over 100 clients from industry and academia. Additionally, APAF is offering in depth bioinformatics and systems biology analysis using latest commercially available and in-house innovated tools.


One of APAF’s goals is to continually push the limits of these technologies to answer the most challenging research questions. This ensures that Australian researchers in the life sciences, medical, agriculture, food and biotech sectors will continue to have access to the latest generation of advanced technologies, and thereby retain global leadership across their respective fields.
While APAF works with academic and industry researchers across the life-sciences domain, it is especially focused on biomedical, agriculture and food and analytical research sectors.


The classifications of research and development activities for which APAF is registered are:
0601 - Biochemistry and Cell Biology
0605 - Microbiology
0702 - Animal Production
0703 - Crop and Pasture Production
0707 - Veterinary Sciences
1001 - Agricultural Biotechnology
1101 - Medical Biochemistry and Metabolomics
1107 - Immunology
1108 - Medical Microbiology
1109 - Neurosciences

Organisations claiming a taxation concession should quote APAF's registration number 37823. Note that there are reporting and recording requirements associated with these claims.

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