Send to

Choose Destination
Sci Rep. 2017 Sep 12;7(1):11301. doi: 10.1038/s41598-017-11310-0.

Assessment of T-cell receptor repertoire and clonal expansion in peripheral T-cell lymphoma using RNA-seq data.

Author information

Department of Pathology, City of Hope National Medical Center, Duarte, 91010, CA, United States.
Department of Pathology and Microbiology, University of Nebraska Medical Center, Omaha, NE, United States.
Department of Hematology, Shandong Provincial Hospital affiliated to Shandong University, Jinan, P.R. China.
Department of Pathology, Chonnam National University Medical School and Research Institute of Medical Sciences, Gwangju, South Korea.
Department of Biomedical Informatics, Columbia University, New York, NY, United States.
Department of Pathology and Laboratory Medicine, Weill Cornell Medical College, New York, NY, United States.
Department of Pathology, City of Hope National Medical Center, Duarte, 91010, CA, United States.


T-cell clonality of peripheral T-cell lymphoma (PTCL) is routinely evaluated with a PCR-based method using genomic DNA. However, there are limitations with this approach. The purpose of this study was to determine the utility of RNA-seq for assessing T-cell clonality and T-cell antigen receptor (TCR) repertoire of the neoplastic T-cells in 108 PTCL samples. TCR transcripts, including complementarity-determining region 3 (CDR3) sequences, were assessed. In normal T cells, the CDR3 sequences were extremely diverse, without any clonotype representing more than 2% of the overall TCR population. Dominant clones could be identified in 65 out of 76 PTCL cases (86%) with adequate TCR transcript expression. In monoclonal cases, the dominant clone varied between 11% and 99% of TCRβ transcripts. No unique Vα or Vβ usage was observed. Small T-cell clones were often observed in T- and NK-cell tumors in a percentage higher than observed in reactive conditions. γ chain expression was very low in tumors expressing TCRαβ, but its expression level was high and clonality was detected in a TCRγδ expressing tumor. NK cell lymphoma (NKCL) did not express significant levels of TCR Vβ or Vγ genes. RNA-seq is a useful tool for detecting and characterizing clonal TCR rearrangements in PTCL.

[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Nature Publishing Group Icon for PubMed Central
Loading ...
Support Center