{"id":"W2002507929","doi":"10.1016/j.tree.2007.03.013","title":"Phenotype ontologies: the bridge between genomics and evolution","year":2007,"lang":"en","type":"article","venue":"Trends in Ecology & Evolution","topic":"Biomedical Text Mining and Ontologies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":137,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Calgary; University of British Columbia","funders":"National Human Genome Research Institute; Johns Hopkins University; National Institutes of Health; National Science Foundation","keywords":"Genomics; Evolutionary developmental biology; Parallels; Biology; Evolutionary biology; Phenotype; Comparative genomics; Ontology; Gene; Genome; Genetics","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":[0.0007364598,0.0001344805,0.0001679617,0.0001289085,0.0001298541,0.000007795512,0.0001853053,0.0004036249,0.000009082213],"category_scores_gemma":[0.0002084489,0.0001061961,0.0000449193,0.0001920302,0.000475905,0.000003752228,0.0001312184,0.0001930575,0.000008036883],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001442696,"about_ca_system_score_gemma":0.00004904817,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001276473,"about_ca_topic_score_gemma":0.003177116,"domain_scores_codex":[0.9988651,0.00009393074,0.0002576624,0.0003216881,0.00007237277,0.0003892456],"domain_scores_gemma":[0.9994946,0.00009452688,0.00008893303,0.0002401768,0.00003024017,0.00005154226],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001199744,0.00005382333,0.8876677,0.000005829346,0.00004562625,0.00000426353,0.0001348173,0.00002412657,0.005456722,0.0006314135,0.002474246,0.1033814],"study_design_scores_gemma":[0.0004521931,0.0003058002,0.9904274,0.000003257779,0.00002171335,0.00001456443,0.0001580783,0.00006726022,0.0003044392,0.0009407089,0.007183144,0.0001214175],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9885532,0.00148238,0.007999401,0.0007593442,0.0002698522,0.00007256981,0.00000903441,0.0000318828,0.0008223808],"genre_scores_gemma":[0.998431,0.00006495907,0.000780447,0.00009242582,0.000271057,0.000009429955,0.00006211453,0.000009425371,0.0002791825],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.10326,"threshold_uncertainty_score":0.4330549,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02300121471507478,"score_gpt":0.2948531741314533,"score_spread":0.2718519594163785,"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."}}