Single Cell/Nuclei RNA Sequencing Services
Parse Biosciences Certified Service Provider
Single Cell Parse Evercode services provide highly scalable and flexible analysis of individual cells within a tissue sample. SeqMatic is a Certified Service Provider for Parse Biosciences and their Evercode™ technology.
Evercode technology enhances single-cell RNA sequencing (scRNA-seq) and single-nuclei RNA sequencing (snRNA-seq) by enabling the detection of more genes per cell. Evercode™ uses split-pool combinatorial barcoding, which doesn’t require individual cell isolation. In other words, Evercode™ uses the cell or nucleus as the reaction compartment, eliminating limitations with hardware-based solutions.
Single Cell Parse Evercode Diagram
Cells are first fixed and permeabilized, turning them into their own reaction vessels, removing the need to capture individual cells in droplets or microwells. The split-pool barcoding process then labels cells with an exponentially large number of barcode combinations making it possible to easily scale beyond other technologies. Up to 5 million cells, collected on different days, can be processed in parallel.
HIDDEN
HIDDEN
Fixation Enables Increased Flexibility
Innovative fixation process enables storage up to 6 months, enabling batching of samples for large projects such as time course and / or dosing studies.Batching samples together also reduces the cost per sample and minimizes potential batch to batch variations (batch effects). Eliminate potential biases by processing samples together regardless of when they were collected. Ensure consistency in data analysis and maximize comparability between samples.
Single Cell Sequencing Evercode™ Library Types
SeqMatic offers Parse Biosciences workflows to process:
Whole Transcriptome for any species
- WT Mini kit: Up to 10K cells (1-12 samples)
- WT kit: 10K – 100K cells (1-48 samples)
- WT Mega kit: 100K – 1M cells (1-384 samples)
- WT Penta kit: 1M – 5M cells (1-384 samples)
BCR/TCR for mouse or human species
- WT + TCR Mini kit: Up to 10K cells (1-12 samples)
- WT + TCR kit: 10K – 100K cells (1-48 samples)
- WT + TCR Mega kit: 100K – 1M cells (1-96 samples)
- WT + BCR Mini kit: Up to 10K cells (1-12 samples)
- WT + BCR kit: 10K – 100K cells (1-48 samples)
- WT + BCR Mega kit: 100K – 1M cells (1-96 samples)
T Cell Receptor (TCR) for mouse and human
Capture paired TCRs and gene expression from the same cell. See Parse Biosciences sample T-cell data sets.
Reveal the complexity of the immune repertoire with sensitive detection of TCRs. Measure transcriptome-wide gene expression (including key T-cell subtype markers) together with paired alpha and beta sequences in the same cells.
B Cell Receptor (BCR) for mouse and human
Identify full length BCR sequences and gene expression together. See Parse Biosciences sample B-cell data sets.
Explore a wide variety of adaptive immunity applications through Evercode™ BCR. Delve into the immune response, detecting paired heavy-light chains to characterize the immune repertoire complexity.
CRISPR gRNA Detection
Single cell pooled CRISPR screens enable analysis of complex phenotypes by linking individual gene perturbations with gene expression profiles. This approach has been used for target validation in drug discovery, to understand differences in treatment responses, and map pathways involved in cell differentiation. Wider adoption of this approach has been constrained by the feasibility and high cost of processing sufficient cells for libraries containing more than a few hundred guide RNAs (sgRNAs). CRISPR Detect brings the scalability of Evercode™ technology to single cell CRISPR screens, making genome-wide studies practical.
SeqMatic has automated all Parse workflows on the Integra platform. We can handle larger projects up to 384 samples with consistency. |  |
We can process full workflows or accept your fresh cells, fixed cells or prepared libraries.
|
|---|
SeqMatic offers Parse Biosciences workflows to process:
|
Cell or Nucleic Fixation
- Sample preparation services from cell suspension or tissues.
- SeqMatic has validated protocols for a variety of tissue types (brain, liver, kidney, lungs, etc.)
- Bead-enrichment options are available for dead-cell removal as well as immune-cell isolation.
Fixation Options
- Fix cells yourself
- We can come to your lab through our “Onsite-Seq” service and do it for you!
- Ship cryo-preserved samples, we fix the samples in our lab
Project Customizations
- Species (human, mouse, non-model organisms)
- Cell/Tissue type (whole cell or disassociated nuclei)
- Cell conditions (fresh or cryopreserved)
- Number of cells per sample
- Sequencing read depth per cell
- Bioinformatic requirements
- Other specialized assays (BCR, TCR, CRISPR)
- On-demand Onsite-Seq™ Services and Fetch-Seq™ Services
Flexibility & Convenience
- “Fetch-Seq” on-demand sample pickup service available in the SF Bay Area
- Full workflow services offered – from tissue to data. Your fresh or frozen cells, our expert sc/snRNA workflow.
- Advanced custom bioinformatics beyond the standard workflow is available from our in-house bioinformatics team
Stringent Quality Controls
Your single cell submissions are assessed with Countess III FL to quantify cell concentration in suspension and cell viability before processing. Working carefully with your SeqMatic team to prepare your submission ensures superior cell recovery and cell fixation.
Scientific considerations for read depth
SeqMatic recommends a read depth of 20K read pairs per nucleus. Higher and lower read depths are available depending on model organism requirements and/or project needs.
Preliminary Sequencing
After library preparation, SeqMatic prepared libraries are pooled to customer requirements and the final QC is checked via preliminary sequencing.
World-class validation standard & practices
SeqMatic is equipped to ensure accurate, repeatable and reproducible results. SeqMatic’s quality program has been audited and approved as part of the Clinical Laboratory Improvement Amendments (CLIA) and the College of American Pathologists (CAP) certification for regulated laboratory environment facilities. Our CLIA quality program requires the use of well-defined protocols to maintain the consistency and reproducibility of our NGS workflows.
Custom assay services
Our highly personalized sequencing services can be adapted to almost any (high and/or low throughput) sequencing workflow required by our customers so that we optimize the quality and quantity of data output.
 | Fixation or processing of cells in your laboratory! To maintain maximum sample viability, your samples can be transported to us |
 | SeqMatic’s Premium Services Onsite-SeqTM brings our experts to your lab for sample fixation |
| SeqMatic’s Premium Services |
- Yamazaki, Tomoo, et al. “Single‐Nuclei RNA Sequencing Shows the Engagement of PPAR‐Delta Target Genes Primarily in Hepatocytes and Cholangiocytes by the Selective PPAR‐Delta Agonist Seladelpar.” PPAR research 2025.1 (2025): 2935230.
- Roseberry, Thomas, et al. “Sex differences in GLP-1 signaling across species.” bioRxiv (2025): 2025-03.
Parse Biosciences Technology
