Single-cell proteomics

Proteome analysis

Understanding a cell system is complex due to heterogeneity; large-scale single-cell analysis is fundamental to capture the biology. These studies have primarily been limited to RNA-based technologies, which makes us proud to say that our collaborating laboratory recently benchmarked and established global single-cell mass spectrometry-based proteomics. You can read the article "Quantitative single-cell proteomics as a tool to characterize cellular hierarchies" in Nature Communication.

If you’d like to learn more, we are happy to discuss your project and help you get the most out of your single-cell analysis.

Let’s discuss your project

Contact us early in your single-cell workflow

If you like to perform a single-cell proteome analysis of your complex cell system, we recommend contacting us early in the process. We will provide a free consultation to discuss the workflow needed to ensure optimal conditions for your single-cell study.

Get a price estimate within 24 hours

If you need an estimate for your project, we are happy to help. We encourage you to request an initial free consultation to assess which proteomics approach fits your single-cell research aim.

By booking a meeting, you agree to our privacy policy.

Sample preparation and Mass Spectrometry

Single-cell sample preparation

The sorted cells will go through an advanced sample preparation, where they will be isotope-labeled and multiplexed into a single-cell plate and a booster plate. The booster plate has a higher concentration and captures more good quality MS2 spectra for identification. The single-cell plate is used for the quantification allowing you to compare the relative quantifications.

Experienced Professionals

Biogenity’s team and its partners works with the highest standards to ensure the best quality handling and analysis of your samples. We collaborate with carefully selected proteomics laboratories for phosphoproteomics, ensuring that every aspect of the workflow is executed by specialized personnel.

The latest equipment from Thermo Fisher Scientific

We pride ourselves on offering the latest equipment on the market for mass spectrometry. Our collaborating proteomics laboratory has the latest equipment from Thermo Fischer, ensuring deep coverage. If you’d like to see the complete platform list, follow this link.

Increased sensitivity for single-cell proteomics

For quantitative single-cell proteomics, increased sensitivity is needed. The latest Thermo Fisher Scientific instruments combined with high field asymmetric waveform ion mobility spectrometry (FAIMS) ensure state-of-the-art sensitivity and excellent quantification combined with TMT-isotope labels.

Data analysis, including report, figures, and tables

Visualization of your single-cell proteomics analysis

Data analysis is where you get the overview of your single-cell proteome analysis. You will receive an easy-to-follow report describing the data analysis and results hereof, step-by-step, together with a folder containing all tables and figures. To ensure that you have the material needed, we always provide a vast number of figures and tables.

From single-cell to a simple overview

Analyzing the data from a single-cell study is advanced. Biogenity provides you with data analysis for single-cell proteomics, showing you how your samples cluster, which proteins are regulated, and the bioinformatics associated. The data analysis proves you with everything from volcano plots to various network maps and dot-plots of annotated pathways, biological processes, cellular components, molecular functions, diseases, and more.

Interactive plots to highlight signaling pathways

With our bioinformatic data analysis, you will also get interactive plots that allow you to explore the signaling pathways that are enriched in your data. It lets you take the regulated proteins into perspective, showing which biological pathways or biological processes are potentially up or down-regulated. This helps you get a good understanding of what is happening in the different conditions.

Delivery and discussion

Delivered directly to your inbox

When your single-cell proteome analysis is ready, we deliver it directly to your inbox. Your data and reports are easy to access and secured with encryption and password protection.

You can receive your sample leftovers sent by courier, or Biogenity can safely destroy them after project completion. It is entirely up to you.

Plant a tree with Biogenity and One Tree Planted

Partnering with One Tree Planted, we want to work towards a brighter future with better treatment for diseases and a healthy planet to enjoy life. For us, our children, grandchildren, and the generations to come.

Biogenity donates a dozen trees for every project delivered to support local communities, reforestation in the Amazon rainforest, and reduce CO2 emissions. See how we are making a difference together.

Post-consultation and discussion

It is important to us that you get the most out of your experiment, which is why we always offer a post-consultation where you can ask all your questions about the results. Together, we ensure that you have the best prerequisite for your further research. The consultation can also be used to explore the next step, whether you are looking to expand the project with additional omics studies or validate the results.

What you can expect:

  • Explanation of the different steps in the sample analysis
  • Discussion of the data
  • Explanation of the different steps in the data analysis
  • Q&A to the report

Interpretation of your biological findings

If you need help interpreting the proteomic findings, or a third-party interpretation, Biogenity's consultants are ready to assist you. Click "play" and meet one of our consultants.

Our interpretational analysis highlights strengths and limitations in the experimental design and conclusions, allowing us to recommend follow-up experiments, publication strategies, reporting, and more.

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Other proteomics LC-MS/MS approaches

Laser microdissection


Utilizing laser microdissection, Biogenity provides high-sensitivity proteomics with up to 3,000 proteins from 10^6 micron tissue pieces.

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If you are looking towards characterizing the proteome of your cells, Biogenity provides workflows with more than 10,000 protein identifications.

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Biogenity can provide you with up to 2,000 proteins in your study if you need a high through-put proteomic service with deep coverages.

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