ImmuneLENS characterizes systemic immune dysregulation in aging and cancer
- Author(s)
- Bentham, R; Jones, TP; Black, JRM; Martinez-Ruiz, C; Dietzen, M; Litovchenko, M; Thol, K; Watkins, TBK; Bailey, C; Pich, O; Zhang, Z; Van Loo, P; TRACERx Consortium; Genomics England Consortium; Swanton, C; McGranahan, N;
- Details
- Publication Year 2025-03,Volume 57,Issue #3,Page 694-705
- Journal Title
- Nature Genetics
- Publication Type
- Research article
- Abstract
- Recognition and elimination of pathogens and cancer cells depend on the adaptive immune system. Thus, accurate quantification of immune subsets is vital for precision medicine. We present immune lymphocyte estimation from nucleotide sequencing (ImmuneLENS), which estimates T cell and B cell fractions, class switching and clonotype diversity from whole-genome sequencing data at depths as low as 5× coverage. By applying ImmuneLENS to the 100,000 Genomes Project, we identify genes enriched with somatic mutations in T cell-rich tumors, significant sex-based differences in circulating T cell fraction and demonstrated that the circulating T cell fraction in patients with cancer is significantly lower than in healthy individuals. Low circulating B cell fraction was linked to increased cancer incidence. Finally, circulating T cell abundance was more prognostic of 5-year cancer survival than infiltrating T cells.
- Department(s)
- Laboratory Research
- Publisher's Version
- https://doi.org/10.1038/s41588-025-02086-5
- Open Access at Publisher's Site
https://doi.org/10.1038/s41588-025-02086-5- Terms of Use/Rights Notice
- Refer to copyright notice on published article.
Creation Date: 2025-12-19 05:25:25
Last Modified: 2025-12-19 05:25:55