Our approach

We start with understanding your biological question, then we design an experimental and analytical workflow to maximize insights. Our team leverages a decade of single-cell experience to deliver high-impact answers.

End-to-end single-cell sequencing services

Our team of highly skilled scientists, bioinformaticians, and project managers work closely with you to ensure seamless collaboration. Together, we'll craft a strategy to answer your biological question. Then, we will execute the entire workflow in our purpose-built facility to ensure each step meets our exacting standards for quality, accuracy, and reproducibility. Finally, we are committed to delivering reliable data that leads to actionable insights to advance your discovery program.

How we work

Project design

Strategize with our PhD-level account executives to decide between multiple single-cell technologies, including two exclusively offered by us. Leverage our experience with 200+ clients over 1000+ unique projects.


Sample processing

Run in our purpose-built single-cell lab with Illumina Novaseq X. Benefit from our experience with 8500+ samples sequenced in 40+ organisms and 30+ tissue types with over 10M cells sequenced.

Data analysis

Gain quick insights into your single-cell data with our preliminary analysis report with QC, clustering, and differential gene expression.Uncover biological insights through custom data analysis with our bioinformaticians who have processed over 50 terabytes of singe-cell data.

Our end-to-end approach

Project design

During our consultations, we will align on your biological question, timeline, and sample type to design a robust experimental workflow using the ideal sequencing technology. Our PhD-level account executives will involve our R&D scientists and bioinformaticians to tailor our protocols to your specific needs. We can support you with:

  • Pilot projects;
  • High-throughput single-cell analysis;
  • Single-cell sequencing of clinical samples;
  • Bespoke solutions for novel biological questions and challenging samples.
Book a meeting with one of our single-cell sequencing specialists

Sample processing

At our lab, we process your samples according to the chosen protocol and are dedicated to delivering high-quality data. Our team of scientists has years of experience with single-cell sequencing, including from the early days when analyzing was just one cell at a time!

Our scientists are dedicated to delivering high-quality data and will adapt our workflow to accommodate all sample types, such as nuclei or low-viability samples. Our team performs the end-to-end workflow in our purpose-built facility with quality control steps along the way, so you can be confident your precious samples are handled properly.

Read more about our QC and sample requirements.

Our Single Cell Sequencing Lab

Data analysis

Our bioinformaticians generate a preliminary data analysis report to expedite your research with every project. Our seasoned bioinformaticians perform this analysis using our custom pipelines to deliver a succinct explanation of the results and quality metrics. To further unlock biological insights, our bioinformatics team is eager to work on custom data analysis, which may include clustering analysis, gene set enrichment analysis, data set integration, and the creation of publication or presentation-ready figures.

Read more about our data analysis.

Data analysis VASA-seq


Why choose Single Cell Discoveries?

We are single-cell
sequencing experts

We are 100% focused on single-cell and spatial transcriptomics, enabling us to take on both large-scale projects and create customized solutions for each client project.


Our experience is
unmatched in the field

We have been working in the single-cell field since 2012. Our co-founder and CEO Mauro Muraro published our SORT-seq technology, and our R&D consultant is the mind behind VASA-seq. We have experience in over 40 organisms and 30 tissues and are able to quickly adapt workflows for novel samples.


We work as a
collaborative partner

We are dedicated to maintaining a high-touch, collaborative relationship with clients as we scale our capacity to accommodate larger projects. We act as a thought partner and a catalyst for biological discovery.


We help you stay
ahead of the curve

We are committed to continuously integrating leading-edge technologies into our service offerings to ensure clients have access to the latest advancements. Our R&D department works to both internalize the best commercial platforms and advance our own single-cell innovations.


Case Studies

Learn more about the results of our services—from a client perspective.


Explore client publications using our services.

The EMT transcription factor ZEB1 governs a fitness-promoting but vulnerable DNA replication stress response

The authors discover a chemoresistant ZEB1-high-expressing subpopulation of cancer cells. Then, they use SORT-seq to study the transcriptomes of ZEB1-high- and low-expressing cells. They find changes in cell cycle progression and DNA damage response, which creates stress resistance. This is found to, at the same time, create a targetable vulnerability in chemoresistant ZEB1-high-expressing cancer cells, which could be exploited in therapy.

High-throughput total RNA sequencing in single cells using VASA-seq

Our R&D consultant Salmén developed VASA-seq to detect the total transcriptome in single cells, which is enabled by fragmenting and tailing all RNA molecules after cell lysis. Applied to developing mouse embryos, they found cell type markers, many based on non-coding RNAs, performed cell cycle analysis, and characterized important splicing events during development.

Mammalian life depends on two distinct pathways of DNA damage tolerance

The team applied SORT-seq on mouse embryos to investigate how DNA damage toleration (DDT) deficiency affected the hematopoietic stem cell subset in the so-called LSK compartment. Ultimately, DDT deficiency results in DNA damage accumulation and depletion of hematopoietic stem cells. Meanwhile, it promotes the survival of cells expressing erythroid transcription factor KLF1. These insights indicate a novel molecular mechanism that regulates hematopoietic output in response to DNA damage.


How can we help?

Want to supercharge your project with single-cell insights?

Connect with our PhD-level scientists to discuss your biological question, timeline, sample types, and other customizations for your single-cell analysis.

Book a meeting