{"doi":"10.1126/science.abl5311","title":"Universal antigen encoding of T cell activation from high-dimensional cytokine dynamics","abstract":"Systems immunology lacks a framework with which to derive theoretical understanding from high-dimensional datasets. We combined a robotic platform with machine learning to experimentally measure and theoretically model CD8 + T cell activation. High-dimensional cytokine dynamics could be compressed onto a low-dimensional latent space in an antigen-specific manner (so-called “antigen encoding”). We used antigen encoding to model and reconstruct patterns of T cell immune activation. The model delineated six classes of antigens eliciting distinct T cell responses. We generalized antigen encoding to multiple immune settings, including drug perturbations and activation of chimeric antigen receptor T cells. Such universal antigen encoding for T cell activation may enable further modeling of immune responses and their rational manipulation to optimize immunotherapies.","journal":"Science","year":2022,"id":236024,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":73,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9413,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2022-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":855757,"name":"François X. P. Bourassa","orcid":"0000-0002-2757-5870","position":1,"is_corresponding":false},{"id":681624,"name":"Thomas J. Rademaker","orcid":"0000-0003-4852-6071","position":2,"is_corresponding":false},{"id":855758,"name":"Angela Lee","orcid":"0000-0002-0167-8097","position":3,"is_corresponding":false},{"id":309025,"name":"Taisuke Kondo","orcid":"0000-0002-8545-1251","position":4,"is_corresponding":false},{"id":469102,"name":"Emanuel Salazar-Cavazos","orcid":"0000-0003-0850-0651","position":5,"is_corresponding":false},{"id":351451,"name":"John Davies","orcid":"0000-0002-9482-1066","position":6,"is_corresponding":false},{"id":113313,"name":"Naomi Taylor","orcid":"0000-0002-2459-4558","position":7,"is_corresponding":false},{"id":681629,"name":"Paul François","orcid":"0000-0002-2223-839X","position":8,"is_corresponding":false},{"id":109653,"name":"Grégoire Altan‐Bonnet","orcid":"0000-0002-7283-3162","position":9,"is_corresponding":false},{"id":109649,"name":"Sooraj Achar","orcid":"0000-0003-3425-7501","position":0,"is_corresponding":true}],"reference_count":48,"raw_metadata":null,"created_at":"2026-07-19T00:21:58.728756Z","pmid":"35587980","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}