{"id":"W1852605861","doi":"10.1186/s40168-015-0114-5","title":"Phylogenetic approaches to microbial community classification","year":2015,"lang":"en","type":"article","venue":"Microbiome","topic":"Oral microbiology and periodontitis research","field":"Dentistry","cited_by":51,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University","funders":"Dalhousie University; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs","keywords":"Classifier (UML); UniFrac; Artificial intelligence; Phylogenetic tree; Pattern recognition (psychology); Machine learning; Clade; Biology; Phylogenetic nomenclature; Feature selection; Microbiome; Computer science; Bioinformatics; 16S ribosomal RNA","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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0007078698,0.0001809513,0.0002298923,0.0001972856,0.0002568236,0.0001066736,0.0006138662,0.0002197914,0.0002673839],"category_scores_gemma":[0.00007149496,0.0001796222,0.0000765616,0.0004232769,0.0002083828,0.00007831736,0.000304866,0.000442232,0.007882331],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001431541,"about_ca_system_score_gemma":0.00009237213,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004003535,"about_ca_topic_score_gemma":0.0006447135,"domain_scores_codex":[0.9983814,0.0005540447,0.0002597316,0.0002934702,0.00008591753,0.0004254614],"domain_scores_gemma":[0.9989724,0.00004205521,0.00005356598,0.0006141211,0.00009170561,0.0002262005],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00008503423,0.0001764152,0.009939717,0.00002329078,0.00002711399,0.000009885148,0.000574276,0.000006810295,0.9433625,0.00009737378,0.0443655,0.001332095],"study_design_scores_gemma":[0.002435989,0.0004984598,0.2414482,0.00005436688,0.00003786954,0.000690711,0.001387476,0.00004037583,0.3887542,0.0002694674,0.3634796,0.0009032839],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9948045,0.0001948389,0.0003399299,0.0005671595,0.0005643638,0.000343248,0.0002183165,0.00007100404,0.002896645],"genre_scores_gemma":[0.9923995,0.000001972914,0.001264931,0.0003057696,0.0001396737,0.00002768378,0.0003442528,0.0000276393,0.00548857],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5546082,"threshold_uncertainty_score":0.9928901,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.3755812697444992,"score_gpt":0.3355763449948037,"score_spread":0.04000492474969558,"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."}}