Proteomics Mass Spectrometry

Comprehensive and confident proteomic analysis

To better understand the functions of individual proteins and their place in complex biological systems, it’s necessary to measure changes in protein abundance relative to those of the system, and proteomics mass spectrometry makes that possible. Modern proteomics has shifted from its initial qualitative outlook to a continuum of qualitative and quantitative technologies and approaches which include state-of-the-art sample preparation, liquid chromatography separation, high-resolution accurate-mass Orbitrap mass spectrometry, and proteomic software solutions for mass spectrometry data analysis.

We’re supporting successful laboratories in their discovery and study of proteomes as they combine these components into integrated workflows which maximize productivity and enable broader, deeper proteomic analysis. Our proven scientific network, publications, and pioneering solutions, driven by advances in Orbitrap mass spectrometry systems and consumables, are producing novel, stringent and reproducible results that are pushing proteomics research and discovery forward.

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Triple quadrupole vs Orbitrap mass spec for proteomic analysis

Triple quadrupole vs Orbitrap mass spec for proteomic analysis

Targeted quantitation is frequently performed on triple quadrupole mass spectrometers such as the Thermo Scientific TSQ family, but it can also be accomplished using the HRAM and MS/MS capabilities of Orbitrap-based mass spectrometers. Using the same type of mass spectrometers for discovery and targeted quantitation experiments can simplify the transition to targeted quantitation methods. Thermo Scientific Orbitrap-based mass spectrometers can simultaneously quantify and confirm identification of multiple targeted proteins and peptides even in complex biological matrices.


Find the power to increase productivity

Empowering life science researchers to translate each step to a new level of insight with a next generation ownership experience coupled with an intelligence-driven experimental approach. With the Thermo Scientific Orbitrap Exploris 480 mass spectrometer you'll find market leading quantitative performance to solve your most complex challenges with ease, and the proven qualitative performance you expect.

From exploratory to targeted quantitation, find the power and reliability to make large scale studies possible, while reducing everyday hassles as you increase productivity. And achieving it all, remarkably, within a compact footprint. An extraordinary instrument, providing extraordinary results.

Go beyond today's discovery

Today’s cutting-edge research pushes LC-MS to its limits. Obtaining high confidence insights to enable accurate resolution of subtle differences and avoid costly dead-ends is needed faster than ever before. The Thermo Scientific Orbitrap Eclipse Tribrid mass spectrometer surpasses these limits with new innovations that deliver the ultimate flexibility to expand experimental scope, and with built-in intelligence to ensure the highest data quality and confidence. One system provides maximum insights, so you productively go beyond today’s discovery.


Proteomics liquid chromatography (LC) separations

Large-scale proteomics experiments are typically analyzed at the peptide level. For successful characterization, peptides and proteins must be separated prior to introduction into the mass spectrometer. Minimizing complexity ensures that peptides and proteins can be detected and sequenced even if they are present at low abundance. The gold standard for peptide separation in bottom-up proteomics is reversed phase (RP)-LC because it offers the broadest peptide coverage. Separation using our low-flow systems easily integrate into proteomics mass spectrometry workflows and seamlessly combine with our Orbitrap mass spectrometers for broader and deeper analyses into the proteome.

Obtain high resolution separations of low abundant peptides in complex proteomic samples using columns with high loading capacity.

Thermo Scientific Trap Column Cartridges Holders with nanoViper fittings do not "grab" the tubing at a single point but seal at the tip without using a ferrule. This gives nanoViper fittings their UHPLC, ensuing virtually dead-volume-free capabilities.

Ensure robust nano and capillary flow LC-MS with Thermo Scientific EASY-Spray LC Columns. The integrated column/emitter design eliminates dead volume and is temperature-controlled for maximum reliability and performance. Rigourously tested to ensure maximum quality, these columns are designed for maximum simplicity and ease-of-use.


Our workflows combine different biological sample processing kits with highly sensitive yet powerful instrumentation and integrated software platforms. This results in accurate and reproducible mass spectrometry data from targeted as well as untargeted analysis experiments.

Scientists are using our mass spectrometers and their robust, complementary products to go beyond identification to understanding how proteins act, interact and function under various conditions over time, creating impressive insights about complex biological systems.

Explore multiple products and workflows for protein structure analysis plus learn more about integrative structural biology solutions that bring together mass spectrometry and cryo-electron microscopy to solve large dynamic complexes.

Analysis of proteomics experimental data ranges from mass spectra identification to quantitation to extraction of meaningful biological information. Thermo Fisher Scientific offers a suite of proteomics software products that enable you to quickly transform complex data into meaningful results.

Mass spectrometry calibration solutions are ready-to-use liquid formulations that can quickly calibrate LC-MS instrumentation. Validated standards are available for sensitivity assessment, determination of digestion efficiency, or as a control for complex sample analysis.

Learn more about our reagents, assays, kits and columns that enable robust and reproducible protein extraction from different samples, as well as peptide digestion, enrichment, and clean-up for mass spectrometry analysis.


Proteomics mass spectrometry workflow

Proteomics and protein mass spectrometry workflow


Proteomics mass spectrometry videos


On-demand webinar

Quantitative approaches in discovery proteomics: How do they measure up?

Quantitative approaches in discovery proteomics: How do they measure up?

Get an overview of the current state-of-the art techniques utilized in the field of quantitative discovery proteomics plus a review of the most common workflows and approaches, featuring a comparative study which objectively evaluates the performance of different quantitative approaches using the latest mass spectrometry instrumentation and analysis tools. This webinar will help participants set reasonable expectations and will help in the selection of appropriate workflows according to experimental objectives

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