ImmunoMap: A bioinformatics tool for T-cell repertoire analysis Journal Article
| Authors: | Sidhom, J. W.; Bessell, C. A.; Havel, J. J.; Kosmides, A.; Chan, T. A.; Schneck, J. P. |
| Article Title: | ImmunoMap: A bioinformatics tool for T-cell repertoire analysis |
| Abstract: | Despite a dramatic increase in T-cell receptor (TCR) sequencing, few approaches biologically parse the data in a fashion that both helps yield new information about immune responses and may guide immunotherapeutic interventions. To address this issue, we developed a method, ImmunoMap, that utilizes a sequence analysis approach inspired by phylogenetics to examine TCR repertoire relatedness. ImmunoMap analysis of the CD8 T-cell response to self-antigen (Kb-TRP2) or to a model foreign antigen (Kb-SIY) in naïve and tumor-bearing B6 mice showed differences in the T-cell repertoire of self-versus foreign antigen-specific responses, potentially reflecting immune pressure by the tumor, and also detected lymphoid organ-specific differences in TCR repertoires. When ImmunoMap was used to analyze clinical trial data of tumor-infiltrating lymphocytes from patients being treated with anti-PD-1, ImmunoMap, but not standard TCR sequence analyses, revealed a clinically predicative signature in pre- A nd posttherapy samples. © 2018 American Association for Cancer Research. |
| Journal Title: | Cancer Immunology Research |
| Volume: | 6 |
| Issue: | 2 |
| ISSN: | 2326-6066 |
| Publisher: | American Association for Cancer Research |
| Date Published: | 2018-02-01 |
| Start Page: | 151 |
| End Page: | 162 |
| Language: | English |
| DOI: | 10.1158/2326-6066.cir-17-0114 |
| PROVIDER: | scopus |
| PUBMED: | 29263161 |
| PMCID: | PMC6478441 |
| DOI/URL: | |
| Notes: | Article -- Export Date: 1 March 2018 -- Source: Scopus |
Altmetric
Citation Impact
BMJ Impact Analytics
Related MSK Work