气候变化领域集成服务门户(CCPortal): Deep generative selection models of t and b cell receptor repertoires with sonnia

CCPortal

DOI	10.1073/pnas.2023141118
	Deep generative selection models of t and b cell receptor repertoires with sonnia
	Isacchini G.; Walczak A.M.; Mora T.; Nourmohammad A.
发表日期	2021
ISSN	00278424
卷号	118 期号:14
英文摘要	Subclasses of lymphocytes carry different functional roles to work together and produce an immune response and lasting immunity. Additionally to these functional roles, T and B cell lymphocytes rely on the diversity of their receptor chains to recognize different pathogens. The lymphocyte subclasses emerge from common ancestors generated with the same diversity of receptors during selection processes. Here, we leverage biophysical models of receptor generation with machine learning models of selection to identify specific sequence features characteristic of functional lymphocyte repertoires and subrepertoires. Specifically, using only repertoire-level sequence information, we classify CD4+ and CD8+ T cells, find correlations between receptor chains arising during selection, and identify T cell subsets that are targets of pathogenic epitopes. We also show examples of when simple linear classifiers do as well as more complex machine learning methods. © 2021 National Academy of Sciences. All rights reserved.
英文关键词	Adaptive immune repertoires; Central tolerance; Deep neural networks; Statistical inference; Thymic selection
语种	英语
来源期刊	Proceedings of the National Academy of Sciences of the United States of America
文献类型	期刊论文
条目标识符	http://gcip.llas.ac.cn/handle/2XKMVOVA/179963
作者单位	Statistical Physics of Evolving Systems, Max Planck Institute for Dynamics and Self-Organization, Göttingen, 37077, Germany; Laboratoire de Physique de l'Ecole Normale Supérieure, Paris Sciences and Lettres (PSL) University, CNRS, Sorbonne Universitéand Universitéde Paris, Paris, 75005, France; Department of Physics, University of Washington, Seattle, WA 98195, United States; Herbold Computational Biology Program, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, United States
推荐引用方式 GB/T 7714	Isacchini G.,Walczak A.M.,Mora T.,et al. Deep generative selection models of t and b cell receptor repertoires with sonnia[J],2021,118(14).
APA	Isacchini G.,Walczak A.M.,Mora T.,&Nourmohammad A..(2021).Deep generative selection models of t and b cell receptor repertoires with sonnia.Proceedings of the National Academy of Sciences of the United States of America,118(14).
MLA	Isacchini G.,et al."Deep generative selection models of t and b cell receptor repertoires with sonnia".Proceedings of the National Academy of Sciences of the United States of America 118.14(2021).