DRAFT
Automated workflows
Automation is becoming more and more important for modern proteomics laboratories, where large number of samples are prepared daily.
Explore how Evosep One users have standardized their sample prep workflows and learn the advantages of combining automated sample prep workflows with the Evosep One.
Automation elimintates variations and increase lab efficiency
Automated sample prep workflows have gained in popularity in proteomics laboratories. With an increased sample throughput on the Evosep One, it is possible to prioritize a high number of technical and biological replicates in a dataset providing excellent strength in the downstream bioinformatic analysis.
Automated workflows as part of the sample preparation process offers some great potential. Automation can remove human variation and increase lab efficiency, bottlenecks that most labs are constantly working to remove.
There are already many effective solutions available when it comes to setting up an automated sample preparation workflow. Based on the work of our users we have collected some examples for you to get inspired by.
Novo Nordisk center for protein research
Fully automated End-to-end workflow using the KingFisherâ„¢ Flex
At the University of Copenhagen the Olsen group has developed streamlined fully automated workflows for sample preparation in collaboration with Resyn Biosciences.
Protein digestion and phospho-enrichment is fully automated for up to 96 samples in parallel with the Kingfisher Flex robot from Thermo Scientific. It takes advantage of the fast scanning speed on the Orbitrap Exploris 480 MS – the ideal combination with short gradients on the Evosep One.
Read more about their work here
University of oxford
Automated Workflow for Immunoprecipitation using the Agilent Bravo AssayMAP liquid handling robot
This publication from University of Oxford led by Adan Pinto-Fernandez, describes a new methodology named ABPP-HT (high-throughput-compatible activity-based protein profiling).
It implements a semi-automated proteomic sample preparation workflow on the Agilent Bravo AssayMAP robot that increases the throughput capabilities of the classical ABPP workflow approximately ten times while preserving its enzyme profiling characteristics.
Novozymes
HIGH-THROUGHPUT HCP ANALYSIS FOR INDUSTRIAL ENZYME MANUFACTURING using Opentron
Novozymes produces recombinant enzymes and microbial solutions for a plethora of bio-based industries.
To meet regulatory demands, they have developed a highly efficient and streamlined HCP workflow, which translate raw samples to data in less than 24 hours, with less than 2 hours of hands-on time.
With a focus on throughput, they have standardized on the Evosep One 200 samples per day method, combined with the Bruker timsTOF Pro and automated data processing by GeneData.
This platform allows them to robustly identify 700-1200 intra-cellular microbial proteins in a sample with average CVs of less than 5% based on five replicate injections.
Source: Anders Giessing, Senior Scientist at Novozymes
EVOSEP WEBINAR
MEET OUR USERS and learn how they have implemented automation as part of the sample preparation
Automated sample prep workflows
available on demand
In this webinar, we will focus on automated samples prep workflows. Users will share how they have standardized their sample prep workflows and discuss the advantages of combining automated sample prep workflows with the Evosep One.
More research using an automated sample prep workflow
Here you can see publications available using an automated sample preparation workflow featuring Evosep One. For a full overview of publications published using the Evosep One Technology visit our Literature room here
| Title | Subject | Material | Year | Summary | Institute | Evosep method | MS instrumentation | Learn More |
|---|---|---|---|---|---|---|---|---|
| Using a cost-efficient and scalable plasma proteomics pipeline to analyze more than 1,100 patient samples | Automation, Plasma Proteomics | Application note | 2025 | 200 SPD | Bruker timsTOF HT | |||
| Scalability for high-throughput proteomics – Evotip Pure integration with the Biomek i5 liquid handler | Automation | Application note | 2024 | With the development of faster and more sensitive mass spectrometers, proteomics has become an essential tool across diverse applications in both academia and industry. As proteomics studies become larger and analyses become more routine, the demand for standardized and scalable solutions is increas- ing. To address this need, we present four fully automated workflows developed … | 200 SPD, 500 SPD | Bruker timsTOF HT | ||
| Efficient proteomics with an automated sample preparation strategy leveraged by Evotip Pure and the AssayMAP Bravo | Automation | Application note | 2024 | Proteomics is undergoing a significant shift and rapidly evolving towards more efficient and user-friendly technologies that can handle higher quantities of samples. The Evosep One, combinedwith improvements in high-end mass spectrometry, has played a vital role in transforming this field, making it possible to analyze hundreds of proteomes daily. Consequently, the bottleneck in high-throughput proteomics … | 100 SPD, 500 SPD, Whisper Zoom 40 SPD, Whisper Zoom 80 SPD | Bruker timsTOF HT | ||
| Unlocking the plasma proteome with Evotip Pure based, standardized and scalable workflows | Automation | Application note | 2024 | Plasma stands out as one of the most readily accessible biofluids, with an estimated pres- ence of over 10,000 distinct proteins. A significant portion of these are released from organs and tissues. The ability to measure such proteins in a robust manner holds tremendous potential for advancing next-generation multiplexed biomarker discovery. However, methods must be … | 100 SPD | Thermo Orbitrap Astral | ||
| Evotip Pure brings innovative sample storage and introduction to high-sensitivity and scalable LC-MS workflows | Automation | Application note | 2024 | The Evotip Pure technology has emerged as a key component of proteomics workflows enabling seamless integration of upstream sample prepa- ration with LC-MS analysis by reducing sample handling steps and thereby efficiently minimizing sample losses to plasticware, which significantly improves recovery and reproducibility. These properties are even more critical in single-cell proteomics (SCP), a rapidly … | ||||
| Fully automated, rapid, robust sample loading on Evotip Pure with the Agilent AssayMAP Bravo | Automation | Application note | 2023 | Automation and robotics have revolutionized the field of proteomics, offering solutions to the growing need for streamlined workflows and efficient sample processing. In this context, automated loading of Evotips has emerged as a pivotal advancement in sample preparation workflows. The Evotip can now be loaded using an innovative and fully automated strategy with the Agilent … | 100 SPD, Whisper 40 SPD | Bruker timsTOF Pro 2, SCIEX ZenoTOF 7600 | ||
| End-to-end, fully automated digestion protocol and Evotip Pure workflow on the Opentrons OT-2 | Automation | Application note | 2023 | The Evosep One provides a standardized and user-friendly platform that enables routine analysis of hundreds of proteomes per instru- ment per day, which has shifted the bottleneck for realizing high-throughput proteomics towards sample preparation. To address this, we have developed a fully automated Evotip loading protocol, based on a unique layered sandwich approach, which is … | 100 SPD, Whisper 40 SPD | Bruker timsTOF Pro 2 | ||
| Robust dimethyl-based multiplex-DIA doubles single-cell proteome depth via a reference channel | Automation, DIA, Single Cell Proteomics | Journal article | 2023 | Whisper 40 SPD | Bruker timsTOF Pro | |||
| MassSpecPreppy—An end-to-end solution for automated protein concentration determination and flexible sample digestion for proteomics applications | Automation | Publication | 2023 | 30 SPD | Bruker timsTOF Pro 2 | |||
| A complete and automated sample preparation strategy for high-throughput and standardized proteomics, applied to a clinical cohort of patient plasma samples | Automation | Poster | 2022 | 500 SPD, Whisper 40 SPD | Bruker timsTOF Pro | |||
| High-resolution longitudinal serum proteome trajectories in COVID-19 reveal patients-specific seroconversion | Automation, Clinical research, Covid-19 | Publication | 2021 | This publication from OmicEra Diagnostics, describes alterations of the serum proteome during COVID-19 using a scalable plasma proteome profiling workflow. It comprises the most detailed longitudinal protein trajectories during hospitalization, based on one of the largest MS-based body fluid proteomics efforts with a total of 720 plasma serum samples. | 60 SPD | Bruker timsTOF Pro | ||
| Standardized workflow for precise mid- and high-throughput proteomics of blood biofluids | Automation, Clinical research, DIA | Webinar | 2021 | In 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. | 60 SPD | Thermo Orbitrap Exploris 480 | ||
| Proteomics of resistance to Notch1 inhibition in acute lymphoblastic leukemia reveals targetable kinase signatures | Automation, DDA, DIA, T-ALL | Publication | 2021 | In this publication, the Olsen group highlights the potential of proteomics to dissect alterations in cellular signaling and identify druggable pathways in cancer. They identify protein kinase C delta (PKCδ) inhibition as a strategy to overcome resistance to Notch1 inhibition in T-cell acute lymphoblastic leukemia. | 30 SPD, 60 SPD | Thermo Orbitrap Exploris 480 | ||
| Automated sample prep workflows | Automation | Webinar | 2021 | In this webinar, we will focus on automated samples prep workflows. Users will share how they have standardized their sample prep workflows and discuss the advantages of combining automated sample prep workflows with the Evosep One. | ||||
| A Compact Quadrupole-Orbitrap Mass Spectrometer With Faims Interface Improves Proteome Coverage In Short Lc Gradients | Automation, DDA, DIA, Technology | Publication | 2020 | Test of Orbitrap Exploris with DIA and TMT, proteome and phospho. | 100 SPD, 200 SPD, 60 SPD | Thermo Orbitrap Exploris 480 |
explore more
find all publications, product brochures and presentations with Evosep One
DOWNLOAD OUR MATERIAL
application note
HOW FAR WILL YOU GO? THE FIVE STANDARD METHODS FOR THE EVOSEP ONE
application note
The proteomics dilemma – High throughput analysis versus proteome depth
case study
PAVING THE WAY TO CLINICAL PROTEOMICS
