Proteomics Services

Precision Proteomics Services


At Biogenity, we empower large-scale proteomics studies to unravel complex biological systems, drive biomarker and drug discovery, and support high-resolution insights across diverse research applications.

A large-scale study of proteins offers various insights to many research questions. Proteins are a vital part of all organisms, and studying the proteome opens up for investigating and understanding the biological systems or/and reactions. Protein profiling is an essential tool in many important research areas such as biomarker discovery, phenotyping, personalized medicine, and drug discovery. Proteomics is an important part of mapping system biology and can also answer research questions, such as ligand binding or elements in protein complexes. At Biogenity, we are ready to help you with your proteomic study.

If you’d like to learn more, we are happy to discuss your project and help you get the most out of your proteomics analysis.


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+10,000 proteins
in deep discovery workflows


Budget-friendly to deep
coverage options for every study


Outliers to diagnostic models
statistics and bioinformatics

Our core proteomics services

Discovery-based proteomics

Discovery

We use large-scale proteomics to illuminate complex biological systems, enabling discoveries in biomarkers, phenotyping, personalized medicine and molecular interactions.

Key capabilities

  • More than 10,000 protein identifications in deep workflows
  • Data-dependent (DDA) and data-independent (DIA) analysis
  • Instruments from budget-friendly to deep: Q Exactive Classic, Orbitrap Exploris 480 and Eclipse Tribrid
  • SOPs shared with you for full transparency
  • Outliers to diagnostic models, with statistics and bioinformatics experts

Discovery-based proteomics

Targeted proteomics

Targeted

Targeted proteomics detects peptide targets of already known proteins, with high throughput, accuracy and sensitivity. It is ideal for biomarker monitoring and validation.

Key capabilities

  • Monitor 150 peptides in a single injection
  • Absolute quantification for concentration measurements
  • Peptide target selection with transparent methods
  • Latest Thermo Fisher Scientific instruments
  • Machine learning and feature extraction for cohort studies

Targeted proteomics

Clinical proteomics

Cohort studies

We support clinical proteomics with deep, cohort-scale analyses that drive biomarker discovery, disease understanding and the development of personalized treatment strategies.

Key capabilities

  • More than 20,000 reviewed proteins across sample options
  • Data-dependent and data-independent analysis
  • Customized SOPs for each sample type, always shared
  • Statistics, bioinformatics and machine and deep learning
  • Tables, figures and reports ready for presentations and publications

Clinical proteomics

Phosphoproteomics

PTM analysis

We use phosphoproteomics to map dynamic signaling events, revealing active kinases, pathways and regulatory mechanisms central to your biological question.

Key capabilities

  • Up to 15,000 phosphorylations per sample
  • TMT labeling on the Orbitrap Eclipse Tribrid, or the fast Exploris 480
  • Time-course designs for signaling within minutes
  • Optimized phosphopeptide enrichment
  • Pathway-level interpretation of kinase activity

Phosphoproteomics

Peptidomics

Peptide analysis

Peptidomics is ideal for identifying degradation patterns from biological processes, truncation of protein sequences and amino acid changes during translation.

Key capabilities

  • More than 50,000 peptides identified in discovery approaches
  • Orbitrap Exploris 480 with FAIMS and Evosep for fast, robust workflows
  • Targeted workflows monitoring up to 150 peptides
  • Statistics and bioinformatics, from biomarkers to validated peptide spectra
  • Easy-to-follow report with all tables and figures

Peptidomics

Ubiquitination

Ubiquitin code

We apply ubiquitinomics to uncover site-specific ubiquitination events, providing a comprehensive view of regulatory signaling, protein stability and ubiquitin-chain–dependent cellular decisions.

Key capabilities

  • Site-specific mapping of ubiquitinated lysines via the diglycine remnant
  • Ubiquitin chain types, from K48 degradation signals to K63 signaling
  • Accurate, quantitative residue mapping of regulated proteins
  • Bioinformatics incl. enriched pathways, processes and E3 ligases
  • Methods shared with you for full transparency

Ubiquitination

Immunoprecipitation

Low complexity samples

Proteomics on immunoprecipitations, gel bands and other targeted protein extractions, used to identify binding targets of antibodies and the proteins in protein complexes.

Key capabilities

  • SOPs for immunoprecipitation, gel bands and purification beads, shared with you on request
  • Multiple proteases available for high sequence coverage
  • Exactive Classic as the cost-effective choice for low complexity samples
  • Orbitrap Exploris 480 and Orbitrap Eclipse Tribrid when top sensitivity is needed

Immunoprecipitation

Metaproteomics

Microbial communities

We use metaproteomics to reveal the functional activity of complex biological systems, identifying and quantifying proteins across mixed microbial communities and host–microbiome samples.

Key capabilities

  • Mixed microbial communities and host–microbiome samples
  • Soil, water, gut, skin, oral and respiratory samples, plus fermentation and bioprocess samples
  • Workflows optimized for maximum protein recovery and minimal bias
  • Bioinformatics, statistics and machine learning for complex metaproteomic datasets
  • Findings placed in a functional and biological context

Metaproteomics

LC-MS/MS or Olink: which platform fits your study?

Two complementary technologies for protein analysis. We help you choose, or combine them.

LC-MS/MS proteomics

Mass spectrometry

LC-MS is not dependent on antibodies or aptamers, which allows the analysis of a much wider range of proteins and modifications.

  • More than 10,000 protein identifications in deep workflows
  • Relative and absolute quantification with isotope-labeled peptides
  • Compatible with most genome-annotated species
  • Identification and quantification of post-translational modifications
  • Orbitrap Exploris 480, Eclipse Tribrid and Q Exactive Classic

LC-MS proteomics

Olink proteomics

Proximity Extension Assay

Olink uses Proximity Extension Assay (PEA) technology for precise and efficient analysis of selected protein biomarkers.

  • 48 to 1,500 protein biomarkers analyzed simultaneously
  • Only 1 µL of biological sample needed
  • Olink technical validation and quality control built into the workflow
  • Suited for focused panels in biomarker discovery and protein profiling

Olink proteomics

Overview of our proteomics platforms by sample type

Cell Line Proteomics

Cell line proteomics provides highly controlled, low-variance systems that make the effects of stimuli or inhibitors clearly detectable. It also reveals the mechanisms behind vaccine, antibody, enzyme, and other recombinant protein production to improve and optimize output.



Tissue Proteomics

Tissue proteomics captures biological complexity by measuring changes across diverse cell types and compartments, making it powerful for monitoring processes like inflammation. When combined with imaging methods such as immunohistochemistry, it enables investigation of cellular distribution, interactions, and spatial validation of molecular changes.



Laser Microdissection

Laser microdissection isolates specific tissue regions to reduce heterogeneity and variance, improving the detection of biological effects. Because the sample amounts are tiny, specialized proteomic extraction and analysis methods are required.



Extracellular Vesicles

Extracellular vesicles provide a rich window into cell communication, with diverse subtypes (e.g., exosomes, microvesicles, apoptotic bodies) carrying unique molecular signatures. Their feature-rich cargo makes them powerful sources for biomarker discovery and understanding disease-related signaling.

Low Complexity Samples

Low-complexity proteomics methods like immunoprecipitation or gel bands isolate specific proteins or complexes for focused analysis. They are essential for identifying binding partners and supporting discovery in diagnostics and therapy development.



Biological Fluids

Biological fluids like blood, CSF, and urine are key sources for diagnostic and prognostic biomarkers, even though a few abundant proteins dominate most of their composition. With advanced proteomics, deep analyses can now identify up to ~2,000 proteins, enabling rich biological insight.



Secretome

Secretome proteomics reveals how cells communicate and respond by profiling proteins released into the extracellular space. These secreted factors, such as cytokines and growth factors, are highly informative for studying processes like inflammation and tumor development.



Fermentation

Fermentation uses microorganisms or enzymes to convert substrates into valuable products, from cheese and mycelium-based foods to precision-fermented dairy alternatives. Proteomics helps uncover underlying biological mechanisms and informs process parameters to optimize production.

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