TCR Sequencing Analysis Service

Go Beyond Basic Metrics: Advanced TCR Repertoire Analysis Services

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Move from raw data to clinical insight. We provide expert bioinformatics analysis for immunomonitoring, TCR specificity, and biomarker discovery.

The Challenge: Why Most Analysis Stops Too Soon

Analysing the vastness of the T-cell receptor (TCR) repertoire is a significant bioinformatics challenge. Many pipelines stop at the surface, providing simple V(D)J usage charts and diversity metrics.

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While these stats are necessary for quality control, they are a commodity. They rarely answer the clinical questions that justified the sequencing in the first place. At ImmuneWatch we understand this challenge and can help you go from Raw Data to Biological Meaning.

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We don't just hand you a spreadsheet of clones. We apply a rigorous three-tiered approach to uncover and characterise the "Clonotypes That Matter."

Let's talk

Our Bioinformatics TCR Analysis Services

Level 0
From Raw Reads to Clonotypes

End-to-end processing, from raw reads to clonotype tables. We identify and quantify TCR clonotypes, essential for all downstream analysis. Be it single-cell or bulk TCR sequencing data.

Level 1
TCR Repertoire Characteristics

We establish the foundational health of your dataset with publication-ready visualisations.

1) TCR Diversity Analysis: Quantify repertoire richness using standard metrics (Shannon entropy, Simpson index).
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2) V(D)J Usage: Accurate annotation of gene segments.
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3) Repertoire Overlap: Assess TCR repertoire sharing between samples.

Level 2
Find the clonotypes that matter

We move beyond descriptive statistics to identify the clones driving the biological response.
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1) Longitudinal Tracking: Identify which clonotypes persist or expand over time.
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2) Differential Abundance: Detect clones that are significantly expanded in response to therapy or disease progression.
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3) Relevance Filtering: We remove the background noise to isolate potential biomarkers or therapy-specific clonotypes.

Level 3
In-depth TCR clonotype characterisation

Most providers stop at Level 2. We take the final, critical step: connecting the sequence to the biology.

‍1) TCR Specificity Analysis: Using our benchmark-winning ImmuneWatch DETECT technology, we annotate your clonotypes with predicted epitope specificity.
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2) HLA Association: Understand the HLA context of your xpanded clones.

‍3) TCR Repertoire Mining: We'll explore whether any of your clonotypes of interest have been seen in other repertoires before.

Single Cell
Integrated RNA-seq and TCR Analysis

Specialised pipelines for single-cell data. We integrate 5' gene expression with V(D)J analysis to link TCR sequence to cell phenotype.

BCR & AIRR-seq Analysis Service

Our expertise extends beyond TCRs. We offer a complete BCR analysis service and support all AIRR-seq analysis needs.

How It Works

We are a platform-agnostic TCR data analysis provider. Whether you use iRepertoire, Qiagen, Cellecta, Takara, Illumina, 10x Genomics, PacBio, or Adaptive Biotechnologies, our experts are ready to help out.

Flexible Data Submission

Deliver your raw FASTQ, clonotype files or 10x Genomics data.

Expert Analysis

Our team runs the 3-Level Framework on your data.

Interactive Report

Receive a comprehensive report with publication-ready figures and interactive data visualisations.

We will discuss these results in-depth during an online meeting.

Free consultation

Common Questions
About Outsourcing TCR Analysis

FAQ

What is the difference between standard TCR repertoire analysis and your service?

Standard analysis often will not extract maximum value out of TCR repertoires. These analyses stop at diversity metrics (Level 1), which are not informative. Our service focuses on finding the clonotypes that matter (Level 2) and TCR-specificity, linking clonotypes to antigens (Level 3).
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These last two steps are critical for researchers from academia or biopharma that are interested in TCR biomarker discovery or studying the response to their (cancer therapy).

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What are the supported platforms?

We are platform-agnostic and have deep experience as a TCR data analysis provider for all major sequencing technologies.

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10x Genomics (Single-Cell 5' VDJ)
Illumina (Bulk RNA-Seq, Amplicon-Seq)
PacBio (SMRT-Seq) & Oxford Nanopore
Adaptive Biotechnologies (immunoSEQ®) data analysis
iRepertoire
Cellecta
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What is TCR repertoire analysis?

TCR repertoire analysis is a method used in computational immunology to characterize the diversity and composition of T-cell receptors (TCRs) in a sample. It involves sequencing the TCR genes (TCR-seq) and using bioinformatics to analyze their V(D)J composition, clonality, and diversity.

What is T-cell receptor sequencing?

T-cell receptor sequencing, or TCR-seq, is a high-throughput sequencing technique used to profile the sequences of TCR alpha and beta chains. This data allows us to understand the clonal expansion of T-cells in response to antigens, which is critical for TCR biomarker discovery.

Can you integrate TCR analysis with epitope prediction?

Yes. While this page details our analysis service, we also offer a TCR epitope prediction tool, ImmuneWatch DETECT. We can integrate our TCR repertoire analysis service with epitope/antigen specificity prediction to provide a complete picture of immune response.

Outsource your TCR data analysis today

Ready to accelerate your research?
Partner with our expert immunoinformatics consulting team.
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