{"id":"W1544184273","doi":"10.1111/j.1742-4658.2010.07656.x","title":"Classification of the short‐chain dehydrogenase/reductase superfamily using hidden Markov models","year":2010,"lang":"en","type":"article","venue":"FEBS Journal","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":184,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Karolinska Institutet; Stiftelsen för Strategisk Forskning; Canadian Institutes of Health Research; National Institute for Health and Care Research; Knut och Alice Wallenbergs Stiftelse; Wellcome Trust","keywords":"Hidden Markov model; SUPERFAMILY; Markov chain; Biology; Pairwise comparison; Computational biology; Genetics; Gene; Computer science; Evolutionary biology; Artificial intelligence; Machine learning","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002501995,0.0001087249,0.0001075081,0.00002265973,0.0001894133,0.00002269947,0.0002615611,0.00009804635,0.00001051686],"category_scores_gemma":[0.00003764174,0.00007905561,0.0001259787,0.0000577881,0.0001071472,0.000001570855,0.0001021529,0.0001652389,5.257045e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009350698,"about_ca_system_score_gemma":0.0001237205,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009176119,"about_ca_topic_score_gemma":0.00003115872,"domain_scores_codex":[0.9992598,0.00005200724,0.0002368429,0.0001502729,0.0001286853,0.0001723932],"domain_scores_gemma":[0.9993972,0.00000687996,0.000102714,0.0002963714,0.00012978,0.00006708186],"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":[0.00002143009,0.00002746716,0.005736045,0.000003395774,0.0000515288,7.855508e-7,0.00005893613,0.0002397776,0.9916085,0.0000910124,0.0004230448,0.001738069],"study_design_scores_gemma":[0.0005420329,0.0001329528,0.04113335,0.00002091582,0.0001064325,0.0005233133,0.0004120852,0.007227634,0.9431641,0.002341173,0.004068147,0.0003278588],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9975106,0.0009208939,0.0003884092,0.0001319676,0.0005164212,0.00009032809,0.00002511449,9.828453e-7,0.0004152703],"genre_scores_gemma":[0.9965104,0.0002021066,0.002702963,0.00006076305,0.0004390274,0.000002486199,0.00000472133,0.00001593923,0.00006151946],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04844441,"threshold_uncertainty_score":0.3223794,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02890292755881203,"score_gpt":0.2558826777570526,"score_spread":0.2269797501982406,"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."}}