{"id":"W4392588447","doi":"10.1038/s41467-024-46367-9","title":"Structural basis for self-discrimination by neoantigen-specific TCRs","year":2024,"lang":"en","type":"article","venue":"Nature Communications","topic":"CAR-T cell therapy research","field":"Medicine","cited_by":15,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Argonne National Laboratory; Biological and Environmental Research; National Institute of Allergy and Infectious Diseases; National Cancer Institute; Melanoma Research Alliance; University of Chicago; National Institute of General Medical Sciences; Cancer Research Institute; York University; U.S. Department of Energy","keywords":"T-cell receptor; Avidity; Major histocompatibility complex; Epitope; Biology; T cell; Cytolysis; Immunogenicity; Computational biology; Antigen presentation; Cell biology; Antigen; Genetics; Cytotoxic T cell; Immune system; In vitro","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002764589,0.0001316702,0.0001635483,0.0001915018,0.000271325,0.0001065211,0.000540233,0.0002572249,0.0008671626],"category_scores_gemma":[0.0001024473,0.0001155042,0.0001541342,0.0004820229,0.0001009188,0.000119945,0.000126062,0.001024381,0.00005279974],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002416184,"about_ca_system_score_gemma":0.0001227033,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001031762,"about_ca_topic_score_gemma":0.00004357342,"domain_scores_codex":[0.9989643,0.00007680822,0.0002039562,0.0002461561,0.0002841956,0.0002246227],"domain_scores_gemma":[0.9976264,0.0005675622,0.00002898979,0.001421162,0.000259966,0.00009588062],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001554691,0.0002388051,0.0007029282,0.000314439,0.0004469646,0.000005131404,0.002393517,0.000001570667,0.1881343,0.06043294,0.4761312,0.2710428],"study_design_scores_gemma":[0.0003641632,0.00007965405,0.002035561,0.00007693903,0.00006878779,0.0000280021,0.0001611084,0.004517574,0.004556437,0.0004204877,0.9875673,0.0001239865],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"review","genre_gemma":"empirical","genre_scores_codex":[0.192039,0.4553536,0.001496663,0.2543236,0.002767244,0.007576062,0.001211816,0.002884608,0.08234749],"genre_scores_gemma":[0.9746467,0.00609666,0.00957787,0.000470318,0.0001964145,0.0001819869,0.001037713,0.0000555705,0.00773669],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.7826078,"threshold_uncertainty_score":0.9494823,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05025525477717951,"score_gpt":0.3819615148023472,"score_spread":0.3317062600251677,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}