{"id":"W1995610774","doi":"10.1016/j.ympev.2012.03.012","title":"Sorting through the chaff, nDNA gene trees for phylogenetic inference and hybrid identification of annual sunflowers (Helianthus sect. Helianthus)","year":2012,"lang":"en","type":"article","venue":"Molecular Phylogenetics and Evolution","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":36,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of British Columbia","funders":"National Science Foundation","keywords":"Biology; Phylogenetic tree; Paraphyly; Monophyly; Coalescent theory; Evolutionary biology; Helianthus; Introgression; Phylogenetics; Plant evolution; Botany; Genetics; Clade; Gene; Genome; Sunflower","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":[0.0002362084,0.0001935949,0.0001638503,0.00004915143,0.0002232637,0.00002800554,0.0001473708,0.0001360927,0.000002837188],"category_scores_gemma":[0.00009641517,0.0001734223,0.00008218081,0.0001016708,0.000220771,0.00001022999,0.000126561,0.00006248372,9.923842e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001012099,"about_ca_system_score_gemma":0.00003296307,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003560932,"about_ca_topic_score_gemma":0.00001857707,"domain_scores_codex":[0.9988079,0.00007727434,0.0003214082,0.000317012,0.0001669096,0.0003094716],"domain_scores_gemma":[0.9992023,0.00002014794,0.0002245719,0.0003048056,0.0001659406,0.00008226516],"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":[0.00004579274,0.00003426265,0.02043548,0.00004111834,0.00006862805,3.161864e-7,0.0004683002,0.001478515,0.9736888,0.0006238333,0.00007970099,0.003035238],"study_design_scores_gemma":[0.0007242202,0.0002924336,0.2491768,0.0000160075,0.0001781204,0.0000325522,0.00060253,0.001390742,0.743715,0.001265379,0.002246876,0.0003592851],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9339611,0.007951691,0.05722006,0.00009904959,0.0001971348,0.0003534723,0.0001822463,0.000006393983,0.00002886008],"genre_scores_gemma":[0.9971877,0.0005696491,0.001792691,0.00009398117,0.0001316201,0.00002033882,0.0001409352,0.00001920157,0.00004389151],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2299738,"threshold_uncertainty_score":0.7071956,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00984385329492322,"score_gpt":0.2444319934389999,"score_spread":0.2345881401440766,"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."}}