Single-Cell RNA Sequencing (scRNA-seq) Service

Move beyond the average to decode cellular complexity. While bulk sequencing provides a blended view of a tissue, our Single-Cell RNA Sequencing (scRNA-seq) service delivers the exact functional state of every individual cell. By mapping true cellular heterogeneity, we enable researchers and industrial partners to pinpoint rare cell populations, track lineage trajectories, and identify specific cellular drivers of disease. Enhance your pre-clinical pipeline by uncovering the high-resolution molecular mechanisms that bulk data simply obscures.

Submit Your Request Now

Submit Your Request Now

overview of SIMS high-resolution imaging

Platforms
Workflow
Deliverables
Applications
Why choose
FAQs
Sample preparation

Our Technology & Platforms

We utilize industry-leading platforms to ensure high capture efficiency and data sensitivity. Whether you are looking for high-throughput screening or deep sequencing of specific populations, we have the right pipeline:

10x Genomics Chromium: The gold standard for high-throughput 3' or 5' gene expression, V(D)J profiling, and Multiome (ATAC + GEX).
BD Rhapsody: High-efficiency microwell-based capture, excellent for targeted panels and CITE-seq (proteogenomics).

Comprehensive Workflow

scRNA-seq workflow

Project Deliverables

We provide a comprehensive data package designed for immediate interpretation and publication-ready results. Our goal is to ensure you spend less time processing raw files and more time focused on your biological discoveries.

Raw & Processed Data Files
- Raw Sequence Data: Standard .fastq.gz files containing your raw reads.
- Alignment & Quantification: Feature-barcode matrices (filtered and unfiltered) in .h5 or .mtx formats.
- Read Mapping Reports: Summary files detailing sequencing saturation, mapping rates, and cell recovery metrics.
Advanced Bioinformatics Package
- Dimensionality Reduction: High-resolution UMAP and t-SNE coordinates for visualizing cell clusters.
- Differential Expression (DE): Comprehensive lists of marker genes for every identified cell cluster.
- Quality Control Logs: Detailed documentation of cell filtering, doublet detection, and normalization steps.
Interactive Visualization & Reporting
- Software-Compatible Files: Ready-to-load files for platforms like 10x Genomics Loupe Browser, Seurat, or Scanpy.
- Publication-Quality Figures: High-resolution plots of cluster assignments, heatmaps, and violin plots of your genes of interest.

Applications

Identify Rare Subpopulations: Detect elusive cell types, such as circulating tumor cells or specific stem cell niches, that are often masked in bulk data.
Map Dynamic Cell States: Track how individual cells evolve, differentiate, or respond to therapeutic interventions over time.
Characterize Complex Tissues: Define the diverse cellular composition of healthy and diseased tissues with unparalleled clarity.
Discover Novel Biomarkers: Locate specific gene expression signatures unique to distinct cell clusters to fuel your next stage of drug discovery or clinical research.

Why Choose Our Service?

Expert Sample Dissociation: Specialized protocols for fragile or complex tissues (e.g., tumor, brain, lung) to ensure high viability and minimal cell stress.
Scalable Multi-Omics: Integrated support for CITE-seq (proteomics), V(D)J profiling, and cell hashing to maximize data from every cell.
Rigorous Quality Control: Multi-stage checkpoints—from suspension to library prep—to guarantee sequencing efficiency and minimize batch effects.
Actionable Bioinformatics: We deliver publication-ready clusters, differential expression analysis, and interactive visualization tools.

FAQs

How many cells should I target per sample?

For most discovery-based projects, we recommend targeting 5,000 to 10,000 cells per sample. This typically provides sufficient statistical power to identify subpopulations representing at least 1–5% of the total sample.

How do you handle batch effects?

We utilize Cell Hashing (oligo-tagged antibodies) to multiplex samples into a single lane. This significantly reduces technical variability and lowers the per-sample cost of library preparation.

What species are compatible with your service?

Our primary pipelines support Human and Mouse (using established reference genomes). However, we can process any species with a well-annotated reference genome. Please consult with our team for non-model organisms.

Learn about other Q&A.

Sample Submission Guideline

Category	Requirement	Technical Specification
Cell Viability	Minimum Threshold	>80% viability (measured via Trypan Blue or AO/PI).
Total Cell Count	Minimum Submission	At least 50,000–100,000 cells in suspension to account for loading loss.
Suspension Buffer	Recommended Media	PBS (Ca^²⁺/Mg^²⁺-free) supplemented with 0.04% BSA.
Purity	Debris & Clumping	Must be a single-cell suspension; filtered through a 30µm–40µm mesh to remove aggregates.
Contaminants	Red Blood Cells (RBCs)	RBC lysis is required for blood or highly vascularized tissue samples.
Buffer Exclusions	Prohibited Reagents	No EDTA (>0.1mM), surfactants (SDS/Tween), or high glycerol concentrations.
Sample Volume	Minimum Volume	Provide at least 50µL – 100µL of cell suspension per sample.

NOTE: For detailed submission instructions, please contact our technical team.

* 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.

Great Minds Choose Creative Proteomics