{"id":"W2971513102","doi":"10.7554/elife.46497","title":"Single-amino acid variants reveal evolutionary processes that shape the biogeography of a global SAR11 subclade","year":2019,"lang":"en","type":"article","venue":"eLife","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":155,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Institute of Biomedical Imaging and Bioengineering; Natural Sciences and Engineering Research Council of Canada; University of Chicago; Marine Biological Laboratory","keywords":"Subclade; Biogeography; Evolutionary biology; Biology; Genetics; Computational biology; Clade; Phylogenetics; Paleontology; Gene","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002452355,0.0002011844,0.0001690127,0.0003752524,0.000194949,0.0004606615,0.0001458089,0.0002529701,0.0008218806],"category_scores_gemma":[0.0004248147,0.0001271174,0.000207511,0.000544121,0.000251059,0.0002760255,0.0004193204,0.0003500222,0.0002405064],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001616965,"about_ca_system_score_gemma":0.0001159285,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001018015,"about_ca_topic_score_gemma":0.002500709,"domain_scores_codex":[0.9998958,0.00001220989,0.000008842948,0.00004346574,0.00002001566,0.00001969606],"domain_scores_gemma":[0.9998136,0.00004990233,0.00006114115,0.0000269339,0.00002651249,0.00002198858],"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":[0.0003498333,0.00003703617,0.2072792,0.0001074717,0.0001055315,0.0001897731,0.000717023,0.0006831873,0.7682723,0.0005625912,0.0001175528,0.02157863],"study_design_scores_gemma":[0.00001198857,0.0002143801,0.92439,0.0000293651,0.000108758,0.0006285305,0.001527409,0.003916887,0.06476858,0.0009602892,0.003425049,0.00001884823],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9972808,0.0001892493,0.001633028,0.00004585476,0.000002833371,0.00000287372,0.0002876385,0.00002292912,0.0005345999],"genre_scores_gemma":[0.9973606,0.0001366303,0.001621904,0.00004097834,0.000002852763,0.000004083877,0.0004910421,0.00001250741,0.000329397],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001018015,"threshold_uncertainty_score":0.002749503,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01349770276866736,"score_gpt":0.2210992887297382,"score_spread":0.2076015859610709,"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."}}