The immune system is a complex, vital network that includes various organs, cell types, and molecules. Two important components of this complex network are the T- and B-cells with their corresponding T-cell receptors (TCRs) and B-cell receptors (BCRs). BCRs recognize antigens leading to activation and subsequent antibody secretion of the cells. TCRs recognize antigens presented by other cells and, therefore, play a vital role in discriminating pathogenic antigens from host antigens. Due to the somatic rearrangement of the B- and T-cell receptor genes, which is also known as V/D/J recombination, a vast number of unique receptors for the detection of various antigens is build. This V/D/J recombination results in an individual’s TCR and BCR repertoire.
Investigating the diversity of immune cells with respect to the TCR and BCR repertoires provides insights into the functioning of our immune system and its response to different conditions. Thus, studies at single-cell resolution using RNA sequencing allow the identification of different clonotypes and clone-specific gene expression. Since a functioning immune system is essential for our health, insights are of high relevance and a better understanding of the immune system composition can help to better understand the complexity of diseases and to develop and test appropriate therapies or vaccines.
Application areas of single-cell immune profiling:
- Response to different conditions and therapeutic interventions
- Vaccination and therapy development
- Target specificity of different clonotypes
- Investigation of autoimmune diseases
We help you to explore your samples’ immune cell diversity by providing Single-Cell Immune Profiling (SIP).
CeGaT Is the Best Partner for Sequencing Your Project
Our Commitment to You
Fast Processing
Turnaround time
≤ 15 business days
High Quality
Highest accuracy for all processes
Secure Delivery
Secure provision of sequenced data via in-house servers
Safe Storage
Safe storage of samples and data after project completion
Our Service
We provide a comprehensive and first-class project support from selecting the appropriate product to evaluating the data. Each project is supervised by a committed scientist. You will have a contact person throughout the whole project.
Our service includes
- Detailed project consulting
- Product selection tailored to your project
- Detailed bioinformatic evaluation of your data
- Detailed project report with information about sample quality, sequencing parameters, bioinformatic analysis, and results
Benefit from our dedicated support and accredited workflows.
Explore Our Product Portfolio for Single-Cell Immune Profiling
We offer Single-Cell Immune Profiling (SIP) using the 10x Genomics® Chromium™ system and the latest NGS technology. The immune-specific regions of the α- and β- chains (TCR) and Ig-chains (BCR) are provided as paired sequences. Would you like to have bioinformatic analyses performed on your data in addition to the included deliverables? Each of our products can be supplemented with further services. We are happy to advise you.
Bioinformatics
Raw sequencing data are automatically processed. We offer different levels of bioinformatic analysis. The default level is Level 1. With increasing bioinformatic level, more data are delivered. All higher levels include the data from the lower levels. In addition to the data, and independent of the analysis level, a project report is generated.
We analyze your Single-Cell Immune Profiling data with the Cell Ranger software from 10x Genomics®. This workflow includes read alignment, filtering, gene expression analysis, and clonotype calling on the V/D/J libraries.
Level 1:
- Demultiplexing of the sequencing data, including index reads (FASTQ format)
Level 2:
- Mapping of the sequencing data
- Gene expression analysis
- V/D/J analysis
Level 3:
- For more than one sequenced sample, your Single-Cell Immune Profiling data is combined into an experiment-wide matrix and reanalyzed after normalization.
Technical Information
We can process between 500 – 10,000 cells per sample, and up to 8 samples can be run in parallel on one Chromium Next GEM Chip. The immune-specific regions of the α- and β- chains (TCR) and Ig-chains (BCR) are preserved and provided as paired sequences. It is recommended to sequence at least 20,000 paired-end reads per cell for the gene expression. For the TCR and BCR libraries, at least 5,000 paired-end reads per cell are recommended. The required sequencing depth strongly depends on the sample type and on the experimental question.
At CeGaT, sequencing is performed using the Illumina sequencing platforms. If you require other sequencing parameters, please let us know! We can provide further solutions.
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Contact Us
Do you have a question or are you interested in our service? Feel free to contact us. We will take care of your request as soon as possible.
Start Your Project with Us
We are happy to discuss sequencing options and to find a solution specifically tailored to your clinical study or research project.
When getting in contact, please specify sample information including starting material, number of samples, preferred library preparation option, preferred sequencing depth and required bioinformatic analysis level, if possible.
