{"id":"W4288711843","doi":"10.1093/sysbio/syac052","title":"The Community Coevolution Model with Application to the Study of Evolutionary Relationships between Genes Based on Phylogenetic Profiles","year":2022,"lang":"en","type":"article","venue":"Systematic Biology","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University","funders":"Natural Sciences and Engineering Research Council of Canada; Research Nova Scotia; Genome Canada","keywords":"Phylogenetic tree; Biology; Trait; Phylogenetic comparative methods; Coevolution; Evolutionary biology; Pairwise comparison; Phylogenetics; Genetic architecture; Quantitative trait locus; Gene; Genetics; Artificial intelligence; Computer science","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":[0.001347969,0.0001308857,0.0001946928,0.00005291661,0.001226877,0.000007356005,0.0004955462,0.00006952942,0.000001164943],"category_scores_gemma":[0.0001293498,0.00007689993,0.00004432922,0.0002049146,0.0001173904,0.000001018085,0.0002268278,0.0002409647,0.00000298898],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000497662,"about_ca_system_score_gemma":0.0001019831,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005264266,"about_ca_topic_score_gemma":0.0002813592,"domain_scores_codex":[0.9964368,0.002598827,0.0003966606,0.0002168626,0.0001902242,0.0001606628],"domain_scores_gemma":[0.9984273,0.0002116715,0.0002583929,0.000938408,0.0001258788,0.00003836033],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0001545151,0.0003743713,0.1034291,0.0003850439,0.0001179723,7.028316e-8,0.0005711846,0.8849044,0.008224463,0.00158599,0.0001543126,0.0000985515],"study_design_scores_gemma":[0.001452099,0.006821025,0.1472138,0.0001258016,0.0002658664,0.00001677669,0.01628308,0.8246205,0.0005039942,0.002024975,0.0002244369,0.0004476398],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9148705,0.0003120104,0.08158397,0.0004316641,0.00004132187,0.002613796,0.00006627401,0.00001270203,0.00006777406],"genre_scores_gemma":[0.9974865,0.000002387937,0.0005163838,0.00007160751,0.0000306302,0.001653218,0.0001756185,0.00001306176,0.00005054443],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08261605,"threshold_uncertainty_score":0.943627,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0248449301212105,"score_gpt":0.2662271594996588,"score_spread":0.2413822293784483,"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."}}