{"id":"W2914282788","doi":"10.1172/jci96313","title":"Spatially distinct tumor immune microenvironments stratify triple-negative breast cancers","year":2019,"lang":"en","type":"article","venue":"Journal of Clinical Investigation","topic":"Cancer Immunotherapy and Biomarkers","field":"Medicine","cited_by":427,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institute of Cancer Research; Ontario Institute for Cancer Research; McGill University Health Centre; Montreal Neurological Institute and Hospital; University of Toronto; Centre Hospitalier de l’Université de Montréal; McGill University; Princess Margaret Cancer Centre; Occupational Cancer Research Centre","funders":"Merck Sharp and Dohme; National Cancer Institute; National Institutes of Health; University of Toronto; Québec Consortium for Drug Discovery; Ohio State University; McGill University Health Centre; Stand Up To Cancer; Faculty of Medicine, McGill University; McGill University; Deutsches Krebsforschungszentrum","keywords":"Stromal cell; Tumor microenvironment; Granzyme B; Triple-negative breast cancer; Immune system; Cancer research; CD8; Cytotoxic T cell; Biology; Granzyme; Laser capture microdissection; Immune checkpoint; Immunology; Breast cancer; Immunotherapy; Cancer; Gene expression; Perforin","routes":{"ca_aff":true,"ca_fund":true,"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":[0.001316255,0.000153728,0.0006154777,0.00007943972,0.00004175158,0.00002651769,0.00013237,0.0001110581,0.0006828818],"category_scores_gemma":[0.0004096791,0.0001161188,0.0003862483,0.0001518962,0.0002905805,0.0002323089,0.00001841232,0.0005194462,0.00004307636],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002348402,"about_ca_system_score_gemma":0.0007865246,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001807865,"about_ca_topic_score_gemma":0.00002934383,"domain_scores_codex":[0.9972507,0.0001882777,0.001751643,0.0001830486,0.0004578712,0.0001684516],"domain_scores_gemma":[0.9975291,0.0002800564,0.001583804,0.0002085265,0.0001643326,0.0002341137],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.01342434,0.0003753581,0.8071391,0.0001339003,0.0009958837,0.00008537944,0.0003695806,0.00005958281,0.1301929,0.00003488604,0.002637972,0.04455113],"study_design_scores_gemma":[0.008204567,0.001689723,0.9786475,0.0004852949,0.0001625837,0.000266917,0.0001058863,0.0002247789,0.008275257,0.0003215782,0.00148283,0.0001330541],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9953357,0.0002383638,0.00007117799,0.002260907,0.001250266,0.0003562048,0.00001796579,0.000008537908,0.0004608491],"genre_scores_gemma":[0.9957467,0.0001585544,0.001592096,0.001313363,0.0005646696,0.000002463996,0.00001436496,0.00001883142,0.0005889811],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1715085,"threshold_uncertainty_score":0.7477077,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03719470121437023,"score_gpt":0.3412165992050687,"score_spread":0.3040218979906985,"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."}}