{"id":"W2125885829","doi":"10.1093/gbe/evu259","title":"Modularized Evolution in Archaeal Methanogens Phylogenetic Forest","year":2014,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"University of Hong Kong","keywords":"Biology; Archaea; Methanogen; Phylogenetic tree; Evolutionary biology; Gene; Genome; Lineage (genetic); Phylogenetics; Coevolution; Horizontal gene transfer; Genetics; Ecology; Bacteria","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002921442,0.000226381,0.000219971,0.00164203,0.0005439908,0.0005864595,0.000250472,0.0001941284,0.0006896201],"category_scores_gemma":[0.0009090664,0.0001792218,0.0003597881,0.0009171942,0.0004122342,0.0004748554,0.0006458551,0.0002541288,0.0002072178],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003116184,"about_ca_system_score_gemma":0.0003427954,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001090536,"about_ca_topic_score_gemma":0.001777076,"domain_scores_codex":[0.9998031,0.00003362576,0.0000107004,0.00007927057,0.00003195726,0.00004133645],"domain_scores_gemma":[0.9995955,0.00007497011,0.0001152121,0.00005030088,0.0000937923,0.00007021945],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0009759516,0.0001330778,0.455051,0.0004052747,0.0004112883,0.0007966853,0.002581686,0.02023279,0.4509991,0.005671551,0.0004953988,0.06224618],"study_design_scores_gemma":[0.00001793922,0.0002583034,0.9193587,0.00006628196,0.0002014476,0.001108804,0.0008415402,0.05711724,0.01132269,0.006330447,0.003323595,0.00005291317],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9942397,0.0002473445,0.004558129,0.00002354013,0.000001907128,0.00001142669,0.0002812085,0.00004730266,0.0005893998],"genre_scores_gemma":[0.994513,0.0001671982,0.004300149,0.00001486296,0.000004387482,0.0000117159,0.0007449633,0.00001603387,0.000227585],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00164203,"threshold_uncertainty_score":0.002307057,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007506317090261866,"score_gpt":0.2256587188629801,"score_spread":0.2181524017727182,"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."}}