{"id":"W3183254943","doi":"10.1038/s41586-021-03752-4","title":"Transcriptional programs of neoantigen-specific TIL in anti-PD-1-treated lung cancers","year":2021,"lang":"en","type":"article","venue":"Nature","topic":"Cancer Immunotherapy and Biomarkers","field":"Medicine","cited_by":547,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University; Ontario Institute for Cancer Research","funders":"National Institute of General Medical Sciences; National Cancer Institute; National Human Genome Research Institute; Ludwig Center at Harvard; Sidney Kimmel Comprehensive Cancer Center; Dr. Miriam and Sheldon G. Adelson Medical Research Foundation; National Institutes of Health; Promotion and Mutual Aid Corporation for Private Schools of Japan; Swim Across America; Mark Foundation For Cancer Research; Parker Institute for Cancer Immunotherapy; Johns Hopkins University; Memorial Sloan-Kettering Cancer Center; Stand Up To Cancer; LUNGevity Foundation; Entertainment Industry Foundation; Commonwealth Foundation; Lustgarten Foundation; International Association for the Study of Lung Cancer; American Society of Clinical Oncology; American Association for Cancer Research; Bristol-Myers Squibb; Allegheny Health Network; Virginia and D.K. Ludwig Fund for Cancer Research; Damon Runyon Cancer Research Foundation; Bloomberg Philanthropies; Conquer Cancer Foundation; Cancer Research Institute; V Foundation for Cancer Research","keywords":"Cancer research; Lung; PD-L1; Biology; Medicine; Genetics; Internal medicine; Cancer; Immunotherapy","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008692333,0.0001079702,0.0002357573,0.00008081989,0.00002212144,0.000009147551,0.00005680562,0.000513339,0.0004654184],"category_scores_gemma":[0.000006366296,0.00009333678,0.0001296602,0.0006037642,0.00006564591,0.00004556112,0.0000055552,0.0007446281,0.000002239723],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001710557,"about_ca_system_score_gemma":0.0002660959,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00008556445,"about_ca_topic_score_gemma":0.0001572087,"domain_scores_codex":[0.9991289,0.00002526922,0.0002063856,0.0002124363,0.0002505285,0.000176417],"domain_scores_gemma":[0.9996068,0.00001131564,0.00004389089,0.0001724032,0.0001239529,0.00004157082],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.002236612,0.000414086,0.182305,0.0002528768,0.0002648842,0.0003628079,0.0007670168,0.000007737754,0.7249066,0.0004030894,0.007569504,0.08050971],"study_design_scores_gemma":[0.005018519,0.0001322635,0.6443267,0.000610591,0.00004505486,0.00009752323,0.0003181817,0.00006456193,0.0799497,0.00002036915,0.2692326,0.0001839881],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9421573,0.05376436,0.000007675977,0.001412569,0.0003436905,0.0002437935,0.00002647949,0.00002827958,0.002015802],"genre_scores_gemma":[0.9955936,0.002576076,0.0002332891,0.0005149188,0.0000921056,0.00001072258,0.0001770508,0.00001490089,0.0007873413],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6449569,"threshold_uncertainty_score":0.5096006,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01341387448868842,"score_gpt":0.2767093766894635,"score_spread":0.2632955022007751,"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."}}