Explore the proteome in greater depth

As a cost-effective alternative to isotopic labeling approaches, label-free analysis enables relative quantitation of protein samples from any origin. Samples are tested individually using advanced software with chromatographic features that align the various runs. The biggest advantage of this approach is that the number of sample comparisons is not limited. Additionally, peptide identification can be performed with any fragmentation method (CID, ETD, EThcD, and/or HCD).

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Label-free relative quantitation instruments
  Orbitrap Eclipse
Orbitrap Eclipse Tribrid Mass Spectrometer
Orbitrap Fusion Lumos
Orbitrap Fusion Lumos Tribrid Mass Spectrometer
Q Exactive Plus
Orbitrap Exploris 480 Mass Spectrometer
Q Exactive HF
Q Exactive HF hybrid Quadrupole-Orbitrap Mass Spectrometer
Advantages Go beyond today's discovery with new innovations that deliver the ultimate flexibility in one system, plus pre-defined data acquisition methods and built-in intelligence for workflows, including TMT, for the highest quality MS data. Experience the highest possible resolution, achieving high detection limits and selectivity in full-scan MS mode, which permits quick and thorough analysis of complex matrices. Making genius simpler with a compact footprint, empowerment for all users and a data-aware quantitation scan mode for targeted proteome analysis in real time, filling the gap for large-scale target profiling, reducing hassles and increasing productivity. Realize unsurpassed resolution and speed by combining an HRAM ultra-high-field Orbitrap analyzer with high performance quadrupole precursor ion selection to deliver unsurpassed speed while maintaining sensitivity.
Resolving Power 7,500-500,000 FWHM at m/z 200 (1M option) 480,000 at m/z 195 Up to 240,000 FWHM at m/z 200
Scan Speed Up to 40Hz
Mass Range 50 to 6,000 (Up to 8,000 with HMRn) 50 to 6,000 40 to 6,000 m/z (up to 8,000 m/z with the BioPharma option) 50 to 6,000 m/z (up to 8,000 with BioPharma Option)
Dynamic Range >5000 with a single OTMS spectrum >5000:1
Mass Accuracy Internal <1 ppm RMS; External: <3 ppm RMS
Obtain broad peptide coverage

During label-free relative quantitation workflows, digested peptides are separated by LC prior to MS. RP separation on Thermo Scientific low-flow systems integrates well with label-free quantitation workflows and combines seamlessly with Thermo Scientific Orbitrap mass spectrometers. The Thermo Scientific EASY-nLC 1200 System and UltiMate 3000 RSLCnano System are the LC systems of choice; the EASY-nLC 1200 offers operational simplicity and high performance, while the UltiMate 3000 RSLCnano features versatility and superior precision.


Boost selectivity and enhance your proteomics workflow with FAIMS Pro Interface

High-Field Asymmetric waveform Ion Mobility Spectrometry (FAIMS) can be used to optimize ion selectivity and reduce chemical backgrounds during mass spectrometry assays. FAIMS successfully prevents interferences from co-eluting compounds and increases signal to noise ratios by 100-fold or higher.

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Software for label-free quantitation

Discover novel protein biomarkers

Thermo Scientific Proteome Discoverer Software, with its new label-free quantitation node, provides an easy-to-use automated solution for evaluating large amounts of LC-MS data generated by label-free experiments. The label-free quantitation node also features a full suite of quantitative capabilities previously only available for isotopically labeled workflows. The combination of label-free quantification workflows with the scaling, normalization, and study management features of Proteome Discoverer software offers a powerful means for analyzing highly complex data.


Label-free quantitation workflow

Label-free quantitation workflow
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