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TCR Immune Repertoire Sequencing

Our DNA based T-cell receptor βeta (TCRβ) sequencing assay allows for a comprehensive characterization of the adaptive immune response through measurement of clonal dynamics and interrogation of clonal populations to a sensitivity of 10-6

Surveying antigen-specific CDR3 sequences provides deeper insight into T-cell population dynamics in response to cancer, infection, or autoimmune disease. Bulk next- generation sequencing (NGS) is capable of providing an in-depth characterization of lymphocyte populations, such as tumor infiltrating lymphocytes, through measurement of diversity and clonality using CDR3 TCRβ sequences.1 Furthermore, NGS allows for resolution of nucleotide CDR3 sequences of TCRβ rearrangements enabling insight into T-cell receptor (TCR) convergence of the immune repertoire. In Immune Checkpoint therapy, dynamic changes in the T-cell repertoire shortly after initiation of treatment could inform response and biomarker development through identification of a peripheral blood early immune-signature allowing for more effective stratification.2 Recently, TCR repertoire signatures were shown to be associated with COVID-19 disease severity and could potentially be used to enhance our understanding of patient prognosis.3 Inquire with us to learn more about our TCR immune repertoire sequencing capabilities.

Highlights:

  • Accurately characterize TCR immune repertoire by identifying unique CDR3 sequence to inform dynamics of clonal expansion and diversity of T-cell populations
  • Reliable characterization and measurement of TCR diversity with minimal input requirements
  • Sensitivity with limit of detection of 10-6 in PBMC provides a powerful tool for monitoring antigen-specific TCRs*
  • Flexible input for assay testing to accommodate sample type, limited DNA availability, and research needs

 

Testing Services
Assay Format Sample Type DNA Input Requirements Applications
Clonality Testing Whole blood
PBMC
FFPE
Fresh Frozen
0.05 – 2 µg Examine TCR clonality and dominant TCR clonotypes
High Sensitivity Whole blood
PBMC
0.5 – 24 µg Examine rare TCR clonotypes, sensitivity is input dependent

 

Assay Specifications
Assay Method Oncomine TCR βeta-SR Assay (DNA)
Gene Targets T-cell receptor β chains, CDR3 region
Platform Ion GeneStudio S5 System
Sample Type Whole Blood, PBMC, FFPE, Fresh Frozen, DNA
Storage and Shipping

Whole Blood (DNA) (Stored at -80°C, shipped frozen on dry ice)
Whole Blood (PBMC) (Store at ambient, ship ambient, isolate within 48hrs)
FFPE (Stored at 2-4°C, shipped on wet ice)
Fresh Frozen (Stored at -80°C, shipped frozen on dry ice)
DNA (Stored at -20°C, shipped frozen on dry ice)

Deliverables TCR clone frequency and abundance
CDR3 TRB sequences (nucleic acid and amino acid sequences, productive/unproductive rearrangements)
V-J segment utilization
Shannon Diversity/Evenness
Convergent TCR Frequency

 

1 Sanz-Pamplona R, et al., 2020, PLoS Med 17(9): e1003292. https://doi.org/10.1371/journal.pmed.1003292
2 Valpione Et al., 2020, Nat Cancer 1(2): 210–221. https://doi:10.1038/s43018-019-0022-x
3 Schultheiß et al., 2020, Immunity 53, 442–455. https://doi:10.1016/j.immuni.2020.06.024
*Sensitivity is input and sample type dependent. Please inquire with us to discuss recommendations for optimal performance.