Plasma proteomics

Plasma proteomics powered by LC-MS is a valuable tool to support personalized healthcare by uncovering novel biomarkers and advancing our understanding of disease biology.

Explore how the Evosep One, with high reproducibility and robustness, is ideally suited for analysis of large sample cohorts of blood plasma.

Plasma proteomics

Proteomics analysis of human blood offers an attractive and challenging pipeline for discovery of biomarkers.

Explore how the Evosep One, with high reproducibility and robustness, is ideally suited for analysis of large sample cohorts of blood plasma.

Webinar  I April 04, 2024  I  4:00 PM CEST /  10:00 AM EDT

Scalable Plasma Proteomics with the Evosep One

April 04, 2024  I  4:00 PM CEST /  10:00 AM EDT

Unlock the future with only a finger prick 

Proteomics methodologies are gaining traction, leading to the discovery of numerous disease-related biomarkers and potential drug targets. By analyzing the diverse and complex protein content in blood plasma, researchers can identify biomarkers crucial for early diagnosis, prognosis, and personalized treatment strategies.

Requiring only a finger prick of blood, plasma proteome profiling could easily be performed throughout the patient’s lifetime, from birth to the later years of life. Certainly, for a widespread adoption of proteomics in the clinic, the entire workflow from sample preparation through LC-MS and data analysis needs to become significantly faster and more sensitive to enable the required throughput.

This approach offers a shift from conventional one-size-fits-all healthcare towards tailored interventions for individual patients.

SIMPLIFIED WORKFLOWS WITH HIGH REPRODUCIBILITY

One of the key advantages of plasma proteomics is its ability to detect proteins and post-translational modifications with high sensitivity and specificity.

However, plasma proteomics comes with its set of challenges. Plasma is a complex mixture of proteins, including low abundant proteins and those masked by more abundant ones. Additionally, some proteins may have modified sequences, further complicating their detection. Overcoming these challenges requires robust analytical techniques and optimized workflows to ensure reliable and reproducible results.

Mass spectrometry based proteomics enables researchers to quantify proteins and characterize protein patterns, offering a more comprehensive understanding of disease mechanisms and patient-specific responses to treatment. With the right technology researchers can overcome challenges and accelerate the translation of plasma proteomics research into new applications, ultimately improving patient outcomes.

Elevate efficiency with automation

Simplification and standardization of workflows is preferred for applications such as plasma proteomics.

The Evosep One not only facilitates robust and reproducible high-throughput analysis of large-scale sample cohorts but is also complemented by automated Evotip loading. The Evotip speeds up your sample loading, reduces carry-over and is a significant contribution to why proteomics has become so easy and routine.

This means that you can reduce manual labor, enhance efficiency, sensitivity, and cost-effectiveness, while ensuring consistent and reliable results across diverse sample cohorts. All ideal when doing large scale plasme proteomics.

Explore more about automated Evotip loading

PrognomiQ

scaling up Lung Cancer Screening with a multi system setup

In this study blood from over 2,500 patients were screened using multi-omics approaches for detection of proteins, metabolites, and transcripts with the aim of generating multiplexed biomarker panel for early lung cancer detection.

Due to high system to system reproducibility combined with our 60SPD standard method they were able to split Analysis across four Evosep One systems for parallel sample processing. This allowed for efficient screening of a large cohort of samples.

This Deep plasma proteome profiling was enabled by automated sample processing, based on the Seer Proteograph assay, coupled to the Evosep One and Bruker timsTOF HT mass spectrometers.

The proteome profiling workflow resulted in the detection of >8,000 protein groups in at least one subject and >5,900 protein groups detected in least 25% of the subjects.

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Center for Translational Biomedical Research at the University of North Carolina

Streamlining a high-throughput plasma proteomics platform with the 60 SPD method

In this study researchers from the Center for Translational Biomedical Research at the University of North Carolina have used the Evosep One combined with the 60SPD method to develop of a high-throughput, robust, and reproducible proteomics platform (sHTPP).

Through a subsequent 300-sample clinical study, their Evotip based workflow demonstrated high sample throughput with minimal interplate variability, indicating its robustness and reliability. Moreover, the sHTPP platform facilitated comprehensive analysis of plasma proteins in clinical samples, boasting high quantitative reproducibility and enabling confident comparison between samples.

The 60SPD method offers an excellent balance of throughput and depth making it a great fit for plasma proteomics.

Read full publication here

University of Oxford

Comprehensive and reliable profiling of the plasma proteome in sepsis patients with the 100 SPD method

By leveraging tandem mass spectrometry with high-throughput automated methods, the University of Oxford has successfully characterized the plasma proteome of over 1000 adult sepsis patients, integrating leukocyte transcriptomics to advance understanding of sepsis pathophysiology and facilitate the discovery of potential therapeutic targets and biomarkers.

In their study, a high-throughput quantitative proteomics workflow was developed using Evosep One combined with the Bruker timsTOF Pro,  analysisng more than 2600 plasma samples from 1600 individuals in a single batch, significantly increasing the throughput of MS-based proteomics.

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Boston Children’s Hospital

A cost efficient strategy for high-thorughput plasma depletion of >3000 samples

In this study researchers from the Boston Children’s Hospital present a simple, validated, time- and cost-efficient, high-throughput protocol for plasma depletion. Their method was used to process over 3200 plasma samples, proving to be both robust and highly reproducible. By leveraging the Evosep One system, the researchers streamlined and simplified their methodology, achieving notable cost savings.

The Evosep One system contributed to reduced consumable costs by maximizing sample recovery and minimizing sample loss, thereby decreasing the consumption of expensive chromatography materials and reagents. Overall, the study presents a cost-efficient and reliable high-throughput plasma depletion technique, facilitating comprehensive plasma profiling and detecting over 1300 proteins per run.

With a throughput of 60 samples per day, the method underwent extensive validation, processing over 3000 samples without any discernible batch effect, and costing approximately $2.5 per sample (reagents and lab ware) for the depletion step.

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Novo Nordisk Foundation of Center for protein research

Fully automated Evotip loading of up to 192 samples in six hours

This study address the challenges of doing high-throughput sample preparation in large cohort plasma studies without compromising sensitivity or reproducibility, even at low sample amounts.

To do so, they developed a Fully automated workflow for integrated sample digestion and Evotip loading. The workflow is based on the Opentrons OT-2 platform and combines PAC digestion using magnetic micro-beads with automated loading of resulting peptides directly on Evotips for reproducible desalting and storage of samples. By integrating digestion and sample loading on Evotips, it minimizes hands-on time, increases throughput, and significantly reduces sample input and required reagents.

Their results showcased that the workflow is reproducible and stable with a proteome depth on par with what would be expected in manual workflows.

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EVOSEP WEBINAR

MEET OUR USERS IN PLASMA RESEARCH

Scalable Plasma Proteomics with the Evosep One

April 04, 2024  I  4:00 PM CEST /  10:00 AM EDT

The adoption of high-throughput techniques in plasma proteomics has transformed the discipline by enabling the simultaneous analysis of large patient cohorts and the identification of hundreds to thousands of proteins. This strategy has facilitated the uncovering of new biomarkers and therapeutic targets that had not been identified before.

 

EVOSEP WEBINAR: Plasma proteomics WITH EVOSEP ONE

Available on demand

In this webinar you will learn how the Evosep One, with high reproducibility and robustness, is ideally suited for analysis of large sample cohorts of blood plasma.

New application note

Unlocking the plasma proteome with Evotip Pure based, standardized and scalable workflows

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More research on plasma

Here you can see publications available on plasma research featuring Evosep One. For a full overview of publications published using the Evosep One Technology visit our Literature room here

TitleSubjectMaterialYearSummaryInstituteEvosep methodMS instrumentationLearn More
Identification of Plasma Biomarkers from Rheumatoid Arthritis Patients Using an Optimized Sequential Window Acquisition of All THeoretical Mass Spectra (SWATH) Proteomics Workflow, , 2023

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Postpartum defects in inflammatory response after gestational diabetes precede progression to type 2 diabetes: a nested case-control study within the SWIFT study, 2023

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Direct isolation of small extracellular vesicles from human blood using viscoelastic microfluidics, , , 2023

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The potential of plasma HLA peptides beyond neoepitopes, , 2023

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Trans-Omics analysis of post injury thrombo-inflammation identifies endotypes and trajectories in trauma patients, , 2023

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Plasma extracellular vesicles in people living with HIV and type 2 diabetes are related to microbial translocation and cardiovascular risk, , , 2021This publication, led by the Trøseid group at Oslo University Hospital investigates the potential role of plasma extracellular vesicles (EVs) in relation to gut microbiota alterations and low-grade endotoxemia in HIV and type 2 diabetes.

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Plasma Proteomics with the Evosep One, , 2021In this webinar you will learn how the Evosep One, with high reproducibility and robustness, is ideally suited for analysis of large sample cohorts of blood plasma.,

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Immunophenotyping assessment in a COVID-19 cohort (IMPACC): A prospective longitudinal study, 2021This resource by the IMmunoPhenotyping Assessment in a Covid-19 cohort (IMPACC) describes a longitudinal study designed to enroll 1000 hospitalized patients with Covid-19. The Evosep One will be used to analyze depleted plasma samples.

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A blood atlas of COVID-19 defines hallmarks of disease severity and specificity, , 2021This publication is a major collaboration led by the Knight group at University of Oxford describing the hallmarks of Covid-19 severity and specificity. It is an integrative multi-omics analysis, where the Evosep One was used for measuring 340 plasma proteomes providing excellent patient stratification.

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Standardized workflow for precise mid- and high-throughput proteomics of blood biofluids, , , 2021In this seminar from the Canadian National Proteomics Network (CNPN) meeting 2021, Angela McArdle presents a standardized workflow for precise high-throughput proteomics of blood biofluids. They established optimal conditions for sample preparation and DIA analysis in plasma, then automated and adapted this for depleted plasma and whole blood.

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The COVIDome Explorer Researcher Portal, , , 2021Researchers from University of Colorado led by Joaquin M. Espinosa, have created a user-friendly researcher portal enabling easy access and real-time analysis of matched multi-omics datasets for COVID-19, termed the COVIDome Explorer. They illustrate the use through a multi-omics analysis of biosignatures associated with C-reactive protein (CRP), an established marker of poor prognosis in COVID-19.

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A robust mass spectrometer for precision medicine – the Orbitrap Exploris 240 mass spectrometer for large-scale plasma protein profiling, 2021This application note from Thermo Fisher Scientific Precision Medicine Science Center demonstrates the reliability and robustness of the Evosep One coupled with the Orbitrap Exploris 240 MS for large-scale, untargeted plasma protein profiling. They observed excellent reproducibility of protein and peptide identifications over 100 injections of human serum performed five weeks apart.

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Integrative analysis of cell state changes in lung fibrosis with peripheral protein biomarkers, , , 2021In this study, the Theis and Schiller groups at the Helmholtz Zentrum München, investigated the correspondence of cell state changes in diseased organs to peripheral protein signatures in pulmonary fibrosis patient cohorts. From plasma proteome profiling of more than 122 patients, they propose CRTAC1 protein levels in plasma as a novel biomarker.,

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Seroconversion stages COVID19 into distinct pathophysiological states, , 2020In this study, researchers from University of Colorado led by Joaquin M. Espinosa, found highly variable seroconversion status among hospitalized Covid-19 patients. Their results support the existence of distinct pathophysiological states, with seroconversion status being potentially useful as a surrogate marker of underlying processes.

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Gradient off-set focusing HPLC insturment for robust and high throughput clinical proteomics, , 2017Evosep One for clinical analysis

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A Novel LC System Embeds Analytes in Pre-formed Gradients for Rapid, Ultra-Robust Proteomics, , , 2018Description of Evosep

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Robust and Reprodusible Protein Quantification in Plasma Using the Evosep One and the Agilent 6495 Triple Quadrupole LC/MS, , 2020Agilent feasibility study

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High dynamic range proteome analysis with BoxCar DIA and super-resolution Orbitrap mass spectrometry, , 2020BoxCar DIA,

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Clinical proteomics, 2018Clinical proteomics poster

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Development of a Novel LC Concept for Clinical Proteomics, , 2018Description of Evosep One

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MaxQuant software for ion moiblity enhanced shotgun proteomics, , 2020MaxQuant for timsTOF analysis

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Plasma proteomics goes high-throughput – timsTOF Pro with PASEF and 4D feature alignment to quantify 500 plasma proteins in 11.5 min, , 2019The timsTOF Pro with PASEF and the Evosep One for biomarker discovery in large sample cohorts of human blood plasma (blood plasma from 192 severe infection patients).

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Consistency, consistency – Automated Sample Prep for Translational Proteomics, 2020In this webinar, Emily Chen, Sr. Director at the Thermo Fisher Precision Medicine Science Center presents an automated, robust and scalable sample preparation pipeline for large-scale clinical research samples.

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An Ultra High-Throughput Plasma Protein Profiling (uHTPPP) Workflow Using a Modified Quadrupole-Orbitrap Mass Spectrometer, , , , , 2020In this application note, the group of Emily Chen at the Thermo Fisher Precision Medicine Science Center describes a high-throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a standardized sample preparation method, high-throughput data acquisition, and easy to implement QC standard.,

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Scalable and Automated Plasma Workflow Based on the Thermo Scientific Q Exactive HF-X MS Platform, , , , 2019In this application note, the group of Emily Chen at PMSC describes a high-throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a standardized sample preparation method, high-throughput data acquisition, and easy to implement QC standard., ,

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A paired liver biopsy and plasma proteomics study reveals circulating biomarkers for alcohol-related liver disease, , , 2020This publication from Matthias Mann groups in Copenhagen and Münich describes a paired liver biopsy and plasma proteomics study, which make use of Boxcar DIA scanning for a large clinical cohort of nearly 600 patients. They have developed a machine learning model based on their biomarker panel, which for the first time outperforms existing tests, …

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Fast Confirmatory Analysis of Rhuepos in Plasma for Horseracing Doping Control, , 2019This application note describes a rapid targeted analysis monitoring two tryptic rHuEPO peptides in plasma for horseracing doping control. The results illustrate the promising capabilities of the Evosep One innovative technology for the analysis of protein/peptide-based drugs in the context of drug testing.

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Evosep One solves the proteomics dilemma – covering high throughput analysis and proteome depth
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end-to-end, fully automated digestion protocol and evotip pure workflow on the opentrons ot-2
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fully automated, rapid, robust sample loading on evotip pure with the agilent assaymap bravo
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