MAY 26, 2016 8:00 AM PDT

Linking T Cell Clonotype to Phenotype with TCR Single-Cell RNA Seq

Sponsored by: Fluidigm, Fluidigm
  • Senior Staff Scientist, Wellcome Trust Sanger Institute
      Mike Stubbington undertook his undergraduate studies at the University of Cambridge and then spent five years as a research scientist for the UK Health Protection Agency. Stubbington then returned to Cambridge for his PhD at the Babraham Institute where he investigated V(D)J recombination in developing B cells. Stubbington then left the lab-bench for a purely computational postdoctoral fellowship in Sarah Teichmann's group at the EMBL-European Bioinformatics Institute. The group recently moved to the Wellcome Trust Sanger Institute where Stubbington is now a Senior Staff Scientist.
    • Postdoctoral Fellow, EMBL-EBI, Visiting Scientist at Wellcome Trust Sanger Institute
        Tapio Lonnberg completed his MSc and PhD studies at the University of Turku, Finland. During Lonnbergs PhD (with Prof. Riitta Lahesmaa) he studied the in vitro differentiation of primary human T helper cells using transcriptomics and proteomics methods, identifying new candidate genes involved in this process. In 2013, Lonnberg joined the Teichmann lab at EMBL-EBI (currently at WTSI) as a postdoctoral fellow. In his postdoctoral work he has focused on using single-cell mRNA-sequencing to understand the fate decisions of T helper cells during pathogen challenge in vivo.

      DATE:  May 26, 2016
      TIME:  8am pacific time, 11am eastern time

      Join us live and learn about a breakthrough in TCR sequencing using single-cell analysis.

      T cells recognize specific antigens via T cell receptors (TCRs), an extremely diverse set of cell surface proteins produced by the rearrangement of germline V(D)J gene segments during T cell development. In the April 2016 issue of Nature Methods, scientists at the European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI) and the Wellcome Trust Sanger Institute (WTSI) published a new approach for single-cell TCR sequencing—an approach that can bring new insights about the response to immunotherapies and cancer vaccines, autoimmune disease, allergy, and vaccine design and efficacy.
      Using Fluidigm® single-cell whole transcriptome RNA sequencing on the C1™ system and a novel bioinformatics tool, these researchers reconstructed the full-length, paired TCR sequences from mouse T cells. In this webinar, Michael Stubbington will present TraCeR, a novel bioinformatics tool developed to identify the single-cell TCR sequences, along with graphing functions enabling correlation of clonotype and phenotype for each T cell. Tapio Lönnberg will demonstrate the power of TraCeR analysis to elucidate the cell fate decision.

      Show Resources