{"id":"W2951817054","doi":"10.1093/database/baz022","title":"AYbRAH: a curated ortholog database for yeasts and fungi spanning 600 million years of evolution","year":2019,"lang":"en","type":"article","venue":"Database","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":13,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Ontario Ministry of Research and Innovation; Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Phylogenetics; Phylogenetic tree; Genome; KEGG; Phylogenomics; Database; Computational biology; Gene; Genetics; Transcriptome; Clade","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":[0.0002469607,0.00009602054,0.0001158952,0.00006767686,0.00003071482,0.00001060784,0.0001211342,0.0000720027,0.00002789881],"category_scores_gemma":[0.0001210239,0.0000976663,0.00003849916,0.0001036238,0.00005893972,0.0000091724,0.0002180956,0.0000689821,0.00002225838],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000006843756,"about_ca_system_score_gemma":0.00006464734,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004446952,"about_ca_topic_score_gemma":0.00001582556,"domain_scores_codex":[0.9991284,0.00003860525,0.0001593153,0.0003283616,0.0001295675,0.0002157407],"domain_scores_gemma":[0.9993444,0.00002038885,0.00005977292,0.0003956275,0.00009830626,0.00008152351],"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":[0.0002414655,0.00004329145,0.008578976,0.0001075653,0.00002155426,0.000002978271,0.00001463151,0.00002368685,0.9869092,0.0001058637,0.001716773,0.002234018],"study_design_scores_gemma":[0.003310274,0.001089675,0.0350705,0.0001895999,0.00005867267,0.00004659539,0.0001870437,0.004750628,0.8975419,0.00006686098,0.05713698,0.0005512579],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9916703,0.00159516,0.004029665,0.00002739569,0.00009927705,0.0003311848,0.002155393,0.000006437326,0.00008515564],"genre_scores_gemma":[0.9920666,0.0002996934,0.002571003,0.00003332188,0.00007898446,0.00001819921,0.00452844,0.00001773456,0.0003860455],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08936728,"threshold_uncertainty_score":0.3982716,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01737349567210891,"score_gpt":0.2865527150731592,"score_spread":0.2691792194010503,"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."}}