From pinhole to panorama

Seer’s Proteograph™ technology offers richer access to the proteome

Keep scrolling to learn how an unbiased view of the proteome can reveal biological discoveries you never thought possible.

For decades, a limiting factor in proteomics research has been the inability to access the proteome in ways necessary to survey and understand its diversity. Today, deep proteomics workflows are costly, complex, and time-consuming, and researchers continue to face the ongoing tradeoff: the scale of the study or the depth of its coverage.

So, Seer created a new technology and approach to provide a more transformative lens of the proteome.

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Unlock critical, novel biological insights

Seer’s Proteograph technology platform enables you to resolve biology at a more fundamental level, from peptide differential expression to the identification of different biologically relevant proteoforms, by offering the four attributes proteomics studies need today.

Proteograph Key Attributes:

  1. Unbiased coverage: Discover new biology, not just what you can capture
  2. Deep access: Survey across the dynamic range of proteins in complex samples without depleting or fractionating
  3. Rapid workflow: Rely on an optimized, robust workflow to complete your projects with minimal hands-on time
  4. Scalable technology: Power longitudinal studies with scalable assay designs

Researchers are making important discoveries with the Proteograph

Being able to catalogue the full set of proteins in any sample, or identify the ones associated with disease, could potentially revolutionize science and healthcare. At Seer, our mission is to pioneer new ways to decode the secrets of the proteome to improve human health.

Ready to level up your proteomics research?

The Proteograph technology enables deep proteome coverage within different biofluids

Seer’s Proteograph workflow

A simplified pathway to get an unlimited, unbiased view of the proteome at scale.

Proteomic Technologies FAQs

Proteomics techniques can largely be distinguished into two types: sample preparation (separation and isolation of proteins) and protein identification/characterization.

Sample preparation includes various gel-based strategies and chromatography-based strategies. Liquid chromatography (LC) is commonly paired with Mass Spectrometry (LC-MS/MS) and can separate proteins in a complex mixture.

Protein identification/characterization includes Edman sequencing, which is the detection of amino acid sequence in peptides/proteins, affinity-based proteomics, which typically uses antibodies or aptamers to target specific proteins, and Mass Spectrometry (MS), which is the process by which proteins are ionized and their mass is calculated based on mass-to-charge ratios.

Reference: B Aslam, et al. Proteomics: Technologies and Their Applications. Journal of Chromatographic Science (2017). https://academic.oup.com/chromsci/article/55/2/182/2333796

Mass Spectrometry (MS) is an analytical tool used to detect and measure unknown compounds, like peptides/proteins, in a sample with a mass-to-charge ratio (m/z).

MS consists of three components including the ionization source (when molecules are converted to gas-phase ions), the mass analyzer (when ions are sorted and separated by mass-to-charge ratios), and the ion detector (when mass-to-charge ratios of separated ions are measured and produce a mass spectrum, which shows the intensity of separated ions by mass-to-charge ratio). The mass spectra produced by the MS are then analyzed to identify and quantify proteins.

Mass Spectrometers can be operated in different modes, including data-dependent acquisition (DDA) mode (MS2 triggered by the most intense MS1 spectra), data independent acquisition (DIA) mode (windows of MS1 spectra are captured for MS2 analysis), and targeted mode (peptides are targeted based on a list of interest).

The two major Mass Spectrometry approaches to study the proteome are the top-down approach, a technique that analyzes intact proteins and enables near 100% sequence coverage but is challenging to scale, and the bottom-up approach, a technique to study digested proteins before Mass Spectrometry analysis. While easy to implement, peptides must be computationally reconstructed into proteins for protein identification, and it has lower protein coverage than the top-down approach, making it more challenging to resolve proteoforms.

Yes, there can be. Upstream workflows are complex and time-consuming. There can be challenges with protein solubility, the proteomic dynamic range (quantifying low abundant proteins), proteome complexity, data analysis, and proteoform identification in bottom-up data and throughput. Mass Spectrometry requires technical expertise and data sparsity.

Many data analysis tools and approaches exist today to analyze proteomics data. Ease-of-use, robustness, scalability, and automation are important factors to consider when selecting your software of choice.

For example, MaxQuant, PeptideProphet, Percolator, DIA-NN, MSFragger, MaxQuant, EnclyclopeDIA, Spectronaut, and MS-GF+ are popular software tools to analyze DDA or DIA Mass Spectrometry proteomics data. Recently, proteomics data analysis tool kits have wrapped various analysis software tools into easy-to-use, parallelized platforms, such as the Proteograph™ Analysis Suite, ProteoWizard, PEAKS studio, and GalaxyP.

Coefficient of Variation (CV) is a statistic used to compare the extent of variation from one set of data to another, even if the means are very different.

  • CV is a measure of the relative distribution of data points around the average. (Ratio of standard deviation divided by the mean.)
  • Factors that may contribute to variability include technical variability (operator, protein preparation method, instrument, ionization efficiency, or software choice) and biological variability (genetic background, disease state, age of subject, or gender).
  • Recent studies have shown ~20-40% intensity CVs are expected.

Keep Exploring

Proteograph Product Suite

Seer’s technology platform can broadly interrogate the dynamic range of proteins in a biological sample with easier-to-use workflows and powerful precision to study hundreds and thousands of samples.

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Proteograph Analysis Suite

See how you can quickly and accurately analyze your proteomics data in a matter of minutes and just a few clicks.

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Customer Stories

Alex Rosa Campos, Ph.D. with Sanford Burnham Prebys shares his experience using the Proteograph Product Suite, his team’s workflow, and the results of their study.

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