| Literature DB >> 35605261 |
Li Song1,2, Zhangyi Ouyang1,3, David Cohen1, Yang Cao1,4, Jennifer Altreuter1, Gali Bai1, Xihao Hu1, Kenneth J Livak5,6, Heng Li1,7, Ming Tang1, Bo Li8, X Shirley Liu1,2,9.
Abstract
We applied our computational algorithm TRUST4 to assemble immune receptor (T-cell receptor/B-cell receptor) repertoires from approximately 12,000 RNA sequencing samples from The Cancer Genome Atlas and seven immunotherapy studies. From over 35 million assembled complete complementary-determining region 3 sequences, we observed that the expression of CCL5 and MZB1 is the most positively correlated genes with T-cell clonal expansion and B-cell clonal expansion, respectively. We analyzed amino acid evolution during B-cell receptor somatic hypermutation and identified tyrosine as the preferred residue. We found that IgG1+IgG3 antibodies together with FcRn were associated with complement-dependent cytotoxicity and antibody-dependent cellular cytotoxicity or phagocytosis. In addition to B-cell infiltration, we discovered that B-cell clonal expansion and IgG1+IgG3 antibodies are also correlated with better patient outcomes. Finally, we created a website, VisualizIRR, for users to interactively explore and visualize the immune repertoires in this study. See related Spotlight by Liu and Han, p. 786. ©2022 American Association for Cancer Research.Entities:
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Year: 2022 PMID： 35605261 PMCID： PMC9299271 DOI： 10.1158/2326-6066.CIR-21-0965
Source DB: PubMed Journal: Cancer Immunol Res ISSN： 2326-6066 Impact factor: 12.020