Single-Cell Multiome (RNA + ATAC) Service

In the past, researchers had to choose between seeing what a cell is doing (RNA) and why it's doing it (ATAC). Today, you don't have to choose.

Our Single-Cell Multiome Service provides a simultaneous view of gene expression and chromatin accessibility from the same single nucleus. By linking the transcriptome to the epigenome in real-time, we help you uncover the regulatory logic that drives cellular differentiation, disease progression, and therapeutic response.

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Submit Your Request Now

Workflow
Deliverables
Applications
Why choose
FAQs
Sample preparation

Comprehensive Workflow

Single-Cell Multiome (RNA + ATAC) workflow chart

Deliverables

Publication-Ready Figures & Methods:High-resolution graphics (UMAPs, linkage tracks), detailed methods, and statistics formatted for direct journal submission.
Raw Sequencing Data:Demultiplexed reads for RNA and ATAC, ready for repository submission (e.g., GEO, EGA).
Processed Data Matrices:Filtered and raw matrices containing cell-level gene expression and chromatin accessibility counts.
Peak & Alignment Files:Peak calls, alignments, and fragments for deeper epigenetic analysis.
Comprehensive QC Report:Key metrics including library complexity, read mapping, and TSS enrichment scores.
Basic Analytics Tables:Spreadsheets detailing joint clustering, differential expression (RNA), and differential accessibility (ATAC).

Applications

Oncology & Immunotherapy: Discover how epigenetic remodeling drives drug resistance and identify the specific enhancers that "exhaust" T-cells in the tumor microenvironment.
Developmental Biology: Map the transition from progenitor to differentiated cell by tracking chromatin opening events that precede gene expression.
Neuroscience: Unpack the complexity of the brain by linking cell-specific regulatory elements to neuropsychiatric risk variants (GWAS).
Autoimmune Research: Identify the regulatory "on-switches" in rare immune subsets that trigger inflammatory cascades.

Why Partner With Us?

Optimized Nuclear Extraction: We have proprietary protocols for "tough" tissues like heart, brain, and fibrotic tumors to ensure high yields and low ambient RNA.
Expert Data Integration: Don't get lost in the numbers. Our bioinformaticians specialize in multi-modal integration, ensuring your RNA and ATAC data speak the same language.
Transparent Timelines: We provide a dedicated project manager and a real-time portal to track your samples from arrival to final data delivery.
End-to-End Support: From experimental design (choosing the right number of cells) to post-delivery consultation, we are with you until your paper is submitted.

FAQs

What is the maximum number of cells per sample?

Our standard validated range is 500 to 10,000 nuclei per channel. Higher throughput options are available upon request for specific high-density studies.

Do you support Multiome for non-human species?

Yes. However, for species other than human and mouse, please note that the quality of the reference genome annotation directly impacts the accuracy of associating ATAC peaks with gene promoters. A high-quality annotation is essential for linking these regulatory elements to target genes.

Can I provide my own nuclei isolation protocol?

While we prefer our optimized internal protocols, we are happy to review and validate your specific SOP to ensure compatibility with the 10x Genomics Chromium platform.

Learn about other Q&A.

Submission Overview: Types & Quantities

Sample Category	Description & Best Use Case	Recommended Quantity
Fresh Suspensions	Immediate processing of PBMCs or dissociated primary cells.	100,000-1,000,000 cells (The specific starting quantity depends on the tissue type.)
Flash-Frozen Tissue	Clinical biopsies or longitudinal studies; must be snap-frozen.	25–50 mg
Cryopreserved Cells	Cells stored in validated media at -80°C or in liquid nitrogen.	1,000,000 cells
Isolated Nuclei	Pre-isolated nuclei shipped on dry ice in validated buffers.	2,000 nuclei/µL

Every tissue type requires specific handling for optimal nuclear integrity. Please contact our technical support team before preparing or shipping samples to receive our tissue-specific dissociation protocols and shipping instructions.

* For Research Use Only. Not for use in diagnostic procedures.

Our customer service representatives are available 24 hours a day, 7 days a week. Inquiry

From Our Clients

"I recently used their proteomics service for a project analyzing protein interactions in yeast models. The team was very responsive and helped clarify the methodology they employed, which made me feel confident in the results. The data quality was solid, with clear identification of several key proteins involved in our study. Their thorough analysis enabled me to pinpoint specific interactions that I hadn't considered before, which significantly improved the direction of my research. I appreciate their professionalism and support throughout the process."

Sarah Thompson, University of California, Berkeley

"Our lab collaborated with them on a project studying cancer biomarkers. The proteomics analysis provided was detailed and focused, specifically highlighting the differential expression of proteins between healthy and tumor samples. Their clear explanations of the data helped my team understand the biological implications. I also appreciated their willingness to revise the reports based on our feedback, ensuring that we had everything we needed for our publication. This collaborative spirit was invaluable."

Emily Rodriguez, Stanford University

"Our lab worked with them on a project studying the effects of diet on gut microbiota using proteomics. They used a label-free quantification method to analyze proteins in fecal samples before and after dietary intervention. The results showed significant changes in protein expression linked to microbial activity. This was pivotal for our hypothesis about diet-microbiota interactions. The clarity of their data presentation made it easy for our team to integrate these findings into our ongoing research."

Dr. Lisa Wong, University of Toronto

"My experience with Creative Proteomics during the mass spectrometry analysis was excellent. We sent in human saliva and mouse brain tissue samples, which they expertly analyzed using both LC-MS and GC-MS techniques. The results were invaluable, revealing key metabolites in the saliva and identifying biomarkers linked to brain function in the brain tissue."

Dr. Emily Carter, Senior Research Scientist

"The overall service from Creative Proteomics was outstanding. They made the entire process seamless and efficient, allowing us to focus on our research. We worked with leaf and root samples from various Arabidopsis genotypes for targeted metabolomics analysis. Their thorough profiling of primary and secondary metabolites gave us important insights into how the plants respond metabolically to environmental stress."

Dr. Laura Henderson, Plant Physiologist

"We had a pleasant collaboration with Creative Proteomics on mass spectrometry analysis of lipids. They conducted a detailed analysis of lipid species, providing us with important insights into lipid metabolism and its relationship with metabolic syndrome disease states."

Dr. Sarah Mitchell, Research Scientist

Online Inquiry

Please submit a detailed description of your project. We will provide you with a customized project plan to meet your research requests. You can also send emails directly to for inquiries.

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