{"id":"W2053118044","doi":"10.1016/j.ympev.2008.03.002","title":"How well do we understand the overall backbone of cycad phylogeny? New insights from a large, multigene plastid data set","year":2008,"lang":"en","type":"article","venue":"Molecular Phylogenetics and Evolution","topic":"Botany and Geology in Latin America and Caribbean","field":"Agricultural and Biological Sciences","cited_by":49,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of British Columbia; University of Alberta","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Cycad; Taxon; Genus; Evolutionary biology; Threatened species; Phylogenetic tree; IUCN Red List; Plastid; Phylogenetics; Phylogenomics; Zoology; Ecology; Clade; Genetics","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":[0.00006715075,0.000176842,0.000206894,0.0000108872,0.000294104,0.0000313546,0.0003448586,0.0001505166,0.00004739957],"category_scores_gemma":[0.0000242604,0.00007456514,0.00006901322,0.0001812773,0.0002689855,0.00004849719,0.0002359018,0.0001258277,0.000004318528],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001127238,"about_ca_system_score_gemma":0.00002000449,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003792878,"about_ca_topic_score_gemma":0.0002843601,"domain_scores_codex":[0.9988511,0.0001150454,0.0001832563,0.000396572,0.0002112661,0.0002427803],"domain_scores_gemma":[0.9993907,0.0000941095,0.0001277247,0.0002354331,0.00004785783,0.0001041596],"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":[0.00007645122,0.0001097462,0.01477886,0.000006023119,0.0001116584,0.00001634222,0.0002657712,0.00009396086,0.976589,0.00116504,0.002354401,0.004432761],"study_design_scores_gemma":[0.001053275,0.0005973025,0.9267973,0.00003830162,0.0001417104,0.00003355237,0.001177548,0.003530231,0.01482574,0.01691906,0.03436854,0.0005174321],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9821019,0.014019,0.001899734,0.001269209,0.0001045442,0.0001522755,0.0002923386,0.00001353005,0.0001474743],"genre_scores_gemma":[0.9968255,0.002247923,0.0002987656,0.0001450686,0.000159498,0.000002005294,0.0002132527,0.00000207784,0.0001059182],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9617633,"threshold_uncertainty_score":0.3040678,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02459377230110784,"score_gpt":0.20747988444343,"score_spread":0.1828861121423222,"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."}}