Proteomics Facility

Proteomics Facility

Proteomics Facility

The Proteomics facility at WEHI connects researchers with a highly specialised team and state-of-the-art proteomics platforms to advance research.  

The facility provides the latest mass spectrometric instrumentation allowing for researcher-led exploration, identification and quantification of proteins and peptides.  

Our team of experts utilise advanced proteomic technologies to facilitate the seamless translation of results to our collaborators,from experimental design and sample preparation to data analysis and statistics. 

Our services and instruments  

Mass spectrometry (MS) and proteomics require specialist training and instrumentation which is beyond the scope and capacity of most resaerch laboratories. The facility makes this expertise and equipment accessible, offering a ‘complete’ approach to support researchers through all stages of planning, experimentation, and data analysis for proteomics.   

Working in a collaborative model that offers customised services, the facility team meets with researchersto discuss aims and expectations, learn about the origin and type of samples they want to submit, and advise on workflows, including appropriate experimental controls.  

Our team also trains users in sample processing or MS instrumentation if upskilling is required for their research.  


The Proteomics facility offers a complete approach to generating mass spectrometry-based data from proteomics experiments. Services are billed at an hourly rate, please contact us to inquire about pricing. 

Proteomic workflows 

Data analysis  

Biostatisticians are available to perform data analysis of proteomic experiments, including data assessment and quality control reports. Our team of experts performs database searching on behalf of the user and can provide raw data and outputs as a part of the service. Analysis pipelines are custom-built and tailored to each project run through the facility. 


The Proteomics facility is equipped with a suite of high-quality advanced mass spectrometry instrumentation capable of undertaking a broad spectrum of experiments.

timTOF PRO (Bruker) connected to the Thermo Ultimate 300 RSLC Nano (PAL CTC autosampler) 

Orbitrap Eclipse Tribrid (Thermo Fisher Scienfic) connected to NeoVanquish LC 

maXis II QTOF (Bruker) connected to LEAP HDX PAL platform

Q Exactive Classic (Thermo Fisher Scienfic) connected to Dionex UltiMate® 3000 UHPLC system

Impact II (Bruker) connected to M-Class UPLC (Waters)

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Our team 

The Proteomics team has a diverse skillset providing expertise across experimental design, data analysis, bioinformatics, and scientific collaboration.   

Dr Laura Dagley – Facility Manager 


  • Proteomic experimental design 
  • Proteomic workflows 
  • Clinical & disease proteomics 
  • General proteomics advice  

Dr Samantha Emery – General Proteomics  


  • Global proteome profiling 
  • Label-free quantitation 
  • Plasma proteomics 
  • DiaPASEF 

Dr Subash Adhikari – Drug-target Identification Specialist 


  • Drug-target engagement studies (CETSA, PISA) 
  • Thermal proteome profiling (TPP) 
  • TMT labelling 

Dr Toby Dite – Protein PTM Specialist  


  • Phosphoproteomics and protein modifications 
  • TurboID & BioID 
  • Cell surface labelling 
  • Intact and Native MS 
  • XL-MS (crosslinking MS) 


Dr Vineet Vaibhav - Clinical and General Proteomics 


  • Proteomics sample prep  
  • Label free proteomics 
  • Biomarker research and Pathway analysis 
  • High throughput proteomics 
  • Collaborative scientist 


Dr Jumana Yousef - Bioinformatician/Statistician 


  • Experimental design 
  • Proteomics bioinformatics 
  • Data processing/normalisation 
  • Statistical evaluation of protein expression (e.g., time course, correlation, clustering analysis) 
  • Gene function/pathway enrichment 


Resources and events

Lorne Proteomics 


Mass spectrometry and proteomics technologies are core analytical techniques at the forefront of revolutionising our understanding of fundamental biological processes. The WEHI proteomics facility will be hosting 2 half-day workshops on Monday 17th – Tuesday 18th April (2- 4:30pm) which aim to provide basic researchers with an overview of the fundamentals of MS and techniques used in mass spectrometry-based proteomics, alongside examples of how it can be applied to biological research. 

Topics that will be covered include:

  • Introduction to mass spectrometry
  • Experimental design (types of techniques, statistical considerations) 
  • Sample preparation methods (“Do’s and Don’ts of MS” and fundamentals)
  • MS instrumentation (liquid chromatography, TOF, Orbitrap and understanding MS spectra)
  • Bioinformatic analysis and interpretation of MS data (database searching, peptide-based quantitation)
  • Some examples of the applications of MS technology to biological research
    • Intact/Top down MS, structural proteomics, clinical proteomics, phosphoproteomics, drug-target ID, XL-MS, IP-MS, global proteomics, TurboID

To register your attendance please click here. We kindly ask you to reserve your place by March 1 for catering purposes. 

Contact us 

To discuss collaborative opportunities or inquire about accessing the WEHI Proteomics Facility, please email Dr Laura Dagley at

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Photo of researchers in a proteomics facility

Dr Laura Dagley’s research into rheumatic heart disease has landed her a finalist position for a Bupa Health Foundation’s Emerging Health Research Award.

Photo of proteomics team

Proteins are intricate molecules that are crucial for processes that make cells function. Proteomics studies the proteins produced by cells, called the proteome.