{"id":"W2137811518","doi":"10.1093/gbe/evv045","title":"Unexpected Ancient Paralogs and an Evolutionary Model for the COPII Coat Complex","year":2015,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Cellular transport and secretion","field":"Biochemistry, Genetics and Molecular Biology","cited_by":47,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Natural Sciences and Engineering Research Council of Canada; National Institute of Environmental Health Sciences; Alberta Innovates; Alberta Innovates - Technology Futures","keywords":"COPII; Biology; COPI; Most recent common ancestor; Eukaryote; Evolutionary biology; Phylogenetics; Endoplasmic reticulum; Phylogenetic tree; Golgi apparatus; Genetics; Genome; Gene; Secretory pathway","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":[0.0001889176,0.0001006294,0.00009381284,0.00001874556,0.0002010727,0.000007201995,0.00006667309,0.0001571765,0.000002348309],"category_scores_gemma":[0.00001465415,0.00007710903,0.0000292862,0.00003534889,0.0002209374,0.000005800871,0.00003052702,0.00004329961,0.000001142553],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001897499,"about_ca_system_score_gemma":0.00005582517,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003118194,"about_ca_topic_score_gemma":0.00007260781,"domain_scores_codex":[0.9993658,0.00003913348,0.0001176221,0.0002627846,0.00003613524,0.0001784946],"domain_scores_gemma":[0.9996334,0.000008260134,0.00003894111,0.0001478142,0.00008536063,0.00008622602],"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":[0.0003902148,0.00004348749,0.02463458,0.00001013047,0.0000348815,2.440496e-7,0.0002326327,0.001026039,0.9694167,0.003625154,0.0003474209,0.0002385574],"study_design_scores_gemma":[0.002949665,0.001701481,0.5494024,0.000005272665,0.0001252859,0.00005883092,0.0005901556,0.3521278,0.0007593282,0.009365243,0.08237323,0.0005412697],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7297564,0.006610218,0.2630283,0.0001718366,0.00008343401,0.0002318123,0.00007049939,0.00001169601,0.00003582179],"genre_scores_gemma":[0.9936897,0.0002368862,0.0009542433,0.0001453536,0.0001737423,0.00003695275,0.004649101,0.000007155382,0.0001068677],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9686573,"threshold_uncertainty_score":0.3144415,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04045443486722315,"score_gpt":0.273040532738035,"score_spread":0.2325860978708119,"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."}}