Whatever your biological question, the right analytical approach starts with the sample — and we work with all of them: tissues (FFPE and fresh/frozen), biological fluids, and cells, including single cells. Our facility is particularly experienced with precious, low-input, and irreplaceable samples, where getting the analysis right the first time is not optional.
From single-cell proteomics to isotope-tracing metabolomics and structural lipidomics — explore the full range of analytical services we offer, including our specialist integrated multiomics workflow for precious samples.
Multiomics Workflow
Proteomics
Understand what proteins are present, how abundant they are, how they are modified, and who they interact with.
Deep Discovery Proteomics
High-sensitivity, high-coverage proteomics from bulk cell or tissue samples. Ideal for comparing conditions, tracking drug responses, or characterising cellular states at the protein level.
Single-Cell Proteomics (SCP)
Resolve protein expression at the level of individual cells. Using the CellenONE for pico-litre dispensing and the Bruker timsTOF SCP for ultra-sensitive detection, we can profile the proteome of single cells — going beyond what transcriptomics alone can tell you. Analysis delivered using CASPA, our open-source single-cell proteomics analysis pipeline.
From cell to LC-MS/MS - our SCP workllow
Spatial Proteomics / Deep Visual Proteomics (DVP)
Identify specific cell types or tissue regions under the microscope, capture them by laser microdissection (Leica LMD7), and profile their proteome with ultra-sensitive MS. Works on FFPE and fresh tissue sections. This approach bridges histology and proteomics — giving you proteome-level information with spatial context.
Interaction Proteomics
Identify binding partners and proximity interactors using BioID or APEX proximity labelling workflows. We handle the full process from sample preparation through to protein identification, delivering confidence-filtered interactor lists.
X-link MS — test Alphafold models
Phox-X-linking to test a predictive Alphafold Multimer model, to identify substrate site. bioRxiv 2025.09.27.678987; doi: https://doi.org/10.1101/2025.09.27.678987
Post-Translational Modification (PTM) Mapping
Expert support for mapping phosphorylation, hydroxylation, ubiquitination, and other modifications. Essential for understanding signalling dynamics and regulatory mechanisms. Histone-tail modifications, targeted and untargeted
Immunopeptidomics
High-confidence identification of HLA-presented peptides — relevant for neoantigen discovery, vaccine design, and understanding immune presentation in health and disease.
Integrated Multiomics
One sample. Three molecular layers. Complete biological context.
Our flagship speciality. When your sample is precious, scarce, or irreplaceable — patient biopsies, rare cell populations, primary material that cannot be re-collected — our integrated multiomics workflow co-extracts proteins, metabolites, and lipids from the same sample in a single unified pipeline.
This workflow is particularly powerful for clinical sample cohorts, rare cell populations, and mechanistic studies where you need to link signalling (proteins/PTMs) to metabolic state (metabolites/lipids). We have used this approach to underpin publications in Nature Metabolism, Nature Immunology, Nature Communications, and Developmental Cell.
Not sure which approach is right?
Book a free consultation. We will help you choose the right workflow — or design a custom one — based on your biological question, sample availability, and budget.
Email: mass-spec@igc.ed.ac.uk | Book via PPMS: https://ppms.
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