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Spatial Pan-Omics Initiative

Enabling discovery through integrated omics technologies
  • #contact Contact us

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Who we are

The Spatial Pan-OmicsÌýInitiativeÌýleveragesÌýthe capabilities and expertiseÌýof our Sydney Mass Spectrometry and facilities to deliver one of the most extensive and integrated spatial multi‑omics platform collections in Australia.

IntegratingÌýcutting-edgeÌýmass spectrometry and spatial transcriptomicsÌýplatforms,Ìýwe enable unprecedented insight into the molecular and cellular architecture of biological systems.

Situated within the Charles Perkins Centre,ÌýweÌýprovideÌýexceptional technical support and data analysis capabilities toÌýenableÌýresearchersÌýand industryÌýto address complex questions in health, disease, and environmental science.

Our experts help you get the most from our state–of-the-art tools and techniques.

Dr ThomasÌýAshhurst,ÌýSenior Cytometry Scientist
EmailÌý´¥ Ìý´¥

ThomasÌýAshhurstÌýPhD is a Senior Cytometry Scientist with the Sydney Cytometry Core Research Facility. In this role he specialises in the use ofÌýcutting edgeÌýhigh-dimensional cytometry, single-cell, and spatialÌýmultiomicsÌýtechnologies for interrogating cellular systems. His work involves the development of new computational and experimental methods to better understand immune development and pathology across the human lifespan. He holds a long-standing interest in the pathogenesis of severe respiratory and neuroinvasive infectious diseases.

Jason Madore,ÌýSenior Cytometry Specialist (Spatial Biology)
EmailÌý´¥

Jason Madore is a Spatial Biology Specialist at the Sydney Cytometry Core Research Facility, where he works on spatial and multiplexed imaging workflows for high-plex immunofluorescence and image-based spatialomics. He provides analytical support to researchers through the planning and implementation of spatial biology experiments and the computational analysis pipelines used to analyse complex spatial datasets.

Jason holds an MSc from the Université de Montréal and has a background in translational/pathobiology cancer research. He specialises in computational spatial analysis, including spatial image processing, neighbourhood and proximity modelling, cell–cell interaction analysis, and quantitative spatial statistics. He develops and applies custom Python and R pipelines for spatial proteomic and transcriptomics data, supporting analysis of tissue architecture, cellular organisation, and tumour microenvironment characterisation.

Dr AlexÌýRookyard, Senior Technical Officer
Email

Alex has overÌýeightÌýyears' experience in proteomic, metabolomic, and lipidomic analysis. He started his journey with mass spectrometry at the University of Sydney where during his PhD he developed methods to quantify irreversible post-translational modification to cysteine residues by targeted mass spectrometry. After this Alex spentÌýtwoÌýyears furthering his proteomic capabilities at Columbia University, New York, where he conducted large-scale analysis of cerebral spinal fluid in the context of Alzheimer’s disease.ÌýHe is now the leading expert on the only IlluminaÌýProteinÌýPrep Platform in theÌýSouthern hemisphere.Ìý

Dr JessicaÌýPandohee,ÌýSenior Technical OfficerÌý
EmailÌýÌý´¥ÌýÌý´¥Ìý

JessÌýsupports our laser-capture microdissectionÌýworkflows andÌýholds a Bachelor of Forensic Science (Deakin University, 2012) and a PhD in Applied Chemistry (RMIT University, 2017). Her PhD research involved the development of multidimensional chromatographic techniques for targeted and untargeted study of metabolites and its application in the field of food,ÌýagricultureÌýand forensic science. The work for which she received the RMIT Vice Chancellor Prize for Research Excellence, The Agilent Technologies Award for SeparationÌýScienceÌýand an Honourable Mention for the IUPAC-Solvay award in 2018. Prior to joining the Sydney Mass Spectrometry, Jess completed a post-doctoral fellowship at the Centre for Integrative Metabolomics and Computational Biology (Edith Cowan University) and the Centre for Crop and Disease Management (Curtin University). Jess’ interests in improving human health and tackling global challenges arising from a growing food, environmental and water insecurity have led her in collaborative projects across Australia and internationally.Ìý

Dr Olivia Lee,ÌýSenior Technical Officer
Email |  | 

Olivia completed her PhD at the University of South Australia, where she investigated tissue-specificÌýglycomicÌýchanges using mass spectrometry imaging. In 2023, she joined Uppsala University, Sweden, as a postdoctoral researcher, where she expanded herÌýexpertiseÌýin mass spectrometry imaging and LC-MS/MS-based proteomics through involvement in a wide range of core-facility projects.ÌýÌýWith over 10 years of research experience, Olivia specialises in LC-MS-based proteomics and MALDI mass spectrometry imaging for lipids, glycans and peptides, withÌýa focus on untargeted biomarker discovery. She is skilled in tissue processing, histological staining, dataÌýanalysisÌýand method development for multi-omics integration. Her research interests include sample optimisation for mass spectrometry imaging and discovery-driven proteomics.Ìý

Dr Samiuela Lee, Senior Technical Officer
Email |  |  | 

With over 15 years of experience in mass spectrometry, Sam graduated with first-class honours in medical science and earned a PhD in analytical chemistry with a focus on LC-PDA-MS/MS method validation for complex herbal formulations from Wester Sydney University (WSU) in 2010. Post-PhD his career has encompassed roles such as a Laboratory Manager at a TGA certified laboratory at the herbal analysis lab at the National Institute for Complementary Medicine (NICM), WSU, Research Scientist for the Kids Cancer Alliance (KCA) within Westmead Children's Hospital, Project Scientist at the National Measurement Institute (NMI), and Research Associate at the School of Chemical and Biomolecular Engineering before joining Sydney Mass Spectrometry.

Sam's coreÌýexpertiseÌýrevolves around method development and validation of targeted metabolomic LC-MS/MS methods in diverse fields including phytochemical, pharmaceutical, pesticide, environmental, and clinical research. He has a provenÌýtrack recordÌýin supporting users in discovery workflows utilising orbitrap and TOF MS instruments.

  1. Consultation.ÌýAfter receiving your enquiry, our staff will put togetherÌýa viableÌýproject design,Ìýtaking into accountÌýfactors such as experimental scope, instrument requirements, and budget.
  2. Activation.ÌýWe willÌýassistÌýyou in registering yourÌýproject, andÌýwill guide you through any necessary formalities prior to project commencement.
  3. Research.ÌýMany of theÌýactivities areÌýdeliveredÌýviaÌýour contract researchÌýservices.ÌýÌýWhere applicable,Ìýwe willÌýalsoÌýorganise a bespoke training program specific to your needs, giving you autonomous access to our facilities to complete your project.

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Resources

Services

Integrating spatial transcriptomics, proteomics, metabolomics and high‑parameter imaging, reveals how cells, molecules and pathways are organised and function within intact tissues. Access to these capabilities is transforming research by revealing how cells, molecules, and biological processes function within their native environments, and enabling deeper insights that guide discovery and therapeutic innovation. See our services below.Ìý

Transcriptomics

Use theÌýCosMxÌýor XeniumÌýsystemsÌýfor targetedÌýspatialÌýtranscriptomics orÌýswitch toÌýtheÌýVisiumÌýforÌýspatially resolved whole transcriptome gene expression profilingÌýcombined withÌýhistology.

Targeted spatial proteomicsÌý

TheÌýPhenoImagerÌýHT andÌýLunaphoreÌýCOMETÌýcan be usedÌýto do high-plexedÌýspatial Proteomics analysisÌýimaging up to 40 proteins at time.Ìý

Single cell discovery proteomicsÌý

Use theÌýOrbitrap Astral Zoom Mass SpectrometerÌýto dive into theÌýproteomeÌýofÌýindividual cells.ÌýThrough a partnership with the ACRFÌýsingle cellÌýproteomicsÌýlaboratory we have a comprehensiveÌýfacilityÌýthat can cutÌýindividualÌýcells from tissue sections or array cellÌýsuspensionÌýintoÌý384 well platesÌýand thenÌýprocess ready forÌýanalyse byÌýmass spectrometry.ÌýIt is possibleÌýto get 5000 proteins per cell at a rate of over 100 cells per day.

Plasma protein profiling

The aptamer (akaÌýSOMAmers) technology in the Illumina Protein Prep (IPP) can profile overÌý9500 proteinsÌýin human plasma or serum. Using precision robotics, two rounds of purification are done before the aptamers are barcode with short oligonucleotides and quantified using next-generation sequencing.ÌýThe assay is designed around a 96 well plate format with 85 samples and 11 controls that allow for cross plate, run and facility comparisons,Ìýfor plasma samplesÌýtheÌýmedian intra-run CVÌýis onÌý4.7%, and inter-run CVs are less 5.8%.

Mass spectrometry imagingÌý

Mass spectrometry imaging (MSI)ÌýenablesÌýthe detection and high-resolution visualisation of biomolecules,Ìýsuch as lipids, drugs,ÌýglycansÌýorÌýproteins,Ìýin tissue sectionsÌýof your sample of interest.ÌýThe molecules can beÌýionisedÌýeither by Desorption ElectroÌýSpray IonisationÌý(DESI)Ìýor byÌýMatrix Assisted Laser Desorption/IonisationÌýMALDIÌýbefore being analysed by mass spectrometry.Ìý

Take a look inside

Hear from researchers and expert technical staff as they showcase how one of Australia’s most comprehensive and integrated spatial multi‑omics platform collections is driving new scientific discoveries.

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Contact us

Location

Spatial Pan-Omics Initiative is located in the Charles Perkins Centre.

Delivery address

Sydney Mass Spectrometry
via The Hub Loading Dock
Charles Perkins Centre (D17)
Orphans School Creek Lane
Camperdown
University of Sydney, NSW, 2006
Dock receiving time: 08:00 – 15:00, Mon - Fri.