{"id":"W2100313871","doi":"10.1186/1471-2148-12-206","title":"Complex patterns of divergence among green-sensitive (RH2a) African cichlid opsins revealed by Clade model analyses","year":2012,"lang":"en","type":"article","venue":"BMC Evolutionary Biology","topic":"Animal Behavior and Reproduction","field":"Agricultural and Biological Sciences","cited_by":29,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"University of Toronto","keywords":"Biology; Gene duplication; Cichlid; Evolutionary biology; Nonsynonymous substitution; Opsin; Clade; Functional divergence; Gene conversion; Synonymous substitution; Phylogenetics; Gene; Molecular evolution; Genetics; Gene family; Rate of evolution; Sexual selection; Genome; Codon usage bias; Rhodopsin","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00136767,0.0005005627,0.0003293718,0.001360535,0.0005776222,0.000706715,0.0004471696,0.0003602489,0.001417503],"category_scores_gemma":[0.002245719,0.0001406718,0.0008363919,0.0006669711,0.000344074,0.0003697567,0.0006566046,0.0005068149,0.0002057065],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000418634,"about_ca_system_score_gemma":0.0002614128,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001231844,"about_ca_topic_score_gemma":0.001503866,"domain_scores_codex":[0.9995576,0.000206921,0.00003369887,0.0001175471,0.00005237204,0.00003185948],"domain_scores_gemma":[0.9984775,0.0009795951,0.0002631473,0.0001047431,0.00008996247,0.00008501983],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001773238,0.0001185478,0.6469792,0.0004621692,0.001725806,0.0008215375,0.004039066,0.06358285,0.2353271,0.006486429,0.0007537018,0.03793039],"study_design_scores_gemma":[0.00005898459,0.0005008324,0.5917302,0.00008906502,0.0005341152,0.001105066,0.00191875,0.382096,0.01211302,0.007655629,0.002122572,0.00007597312],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9960718,0.0001048245,0.003328513,0.00001893032,0.000001250697,0.000006316631,0.0001121738,0.00002365792,0.0003325093],"genre_scores_gemma":[0.9966125,0.00004475023,0.002951266,0.00001265608,0.000001771777,0.00001593368,0.0002861452,0.00001850657,0.00005643289],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001417503,"threshold_uncertainty_score":0.007233024,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1078415225425826,"score_gpt":0.3064630633516537,"score_spread":0.1986215408090712,"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."}}