{"id":"W2001223373","doi":"10.1002/prot.21564","title":"Operons and the effect of genome redundancy in deciphering functional relationships using phylogenetic profiles","year":2007,"lang":"en","type":"article","venue":"Proteins Structure Function and Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":30,"is_retracted":false,"has_abstract":true,"ca_institutions":"Wilfrid Laurier University","funders":"","keywords":"Operon; Genome; Gene; Phylogenetic tree; Biology; Computational biology; Context (archaeology); Genetics; Redundancy (engineering); Evolutionary biology; Computer science","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":[0.0004717586,0.0001343201,0.0001555154,0.00005914222,0.0001766368,0.0000189181,0.00004670949,0.0001040658,0.000003899764],"category_scores_gemma":[0.00007083912,0.00008718541,0.00003294179,0.0001010454,0.0001956315,0.000003073758,0.00008572742,0.0001118084,1.820505e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009595562,"about_ca_system_score_gemma":0.00002045036,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001315172,"about_ca_topic_score_gemma":0.00006444239,"domain_scores_codex":[0.9992855,0.00005055514,0.0003045814,0.0001225997,0.00008931624,0.0001474607],"domain_scores_gemma":[0.9996322,0.00003933141,0.0001228063,0.0001305062,0.00003899702,0.00003617098],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.001585211,0.00001371855,0.2028189,0.0003509402,0.0001672947,3.994841e-7,0.000803922,0.002453831,0.7751936,0.0008916236,0.000006351952,0.01571431],"study_design_scores_gemma":[0.004975278,0.0009234229,0.9296601,0.00005467697,0.0001265423,0.00008276317,0.0007865491,0.004835376,0.05619171,0.000891852,0.001103277,0.0003684354],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.978643,0.001810343,0.01872645,0.00002427624,0.00009258792,0.0005628379,0.00001389304,0.000002188912,0.0001244163],"genre_scores_gemma":[0.993237,0.000096986,0.006509119,0.00002521111,0.00008001299,0.00001094363,0.00001721851,0.000008238111,0.00001532631],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7268413,"threshold_uncertainty_score":0.3555318,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01127709420537746,"score_gpt":0.2150990678782827,"score_spread":0.2038219736729052,"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."}}