{"id":"W2952314547","doi":"10.1371/journal.pgen.1004622","title":"Evidence for Widespread Positive and Negative Selection in Coding and Conserved Noncoding Regions of Capsella grandiflora","year":2014,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":185,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; University of Toronto","funders":"Genome Canada; National Science Foundation","keywords":"Negative selection; Biology; Genome; Genetics; Evolutionary biology; Selection (genetic algorithm); Coding region; Gene; Conserved sequence; Brassicaceae; Computational biology; Ecology; Base sequence","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":[0.0001492077,0.0001076589,0.0001675726,0.0000396587,0.000074812,0.00001217007,0.00004944533,0.00007160013,3.715305e-7],"category_scores_gemma":[0.0002863739,0.0001105751,0.00002642279,0.00005404984,0.0001191136,0.000001037683,0.00006382916,0.00003695101,8.256856e-8],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007391533,"about_ca_system_score_gemma":0.00002385709,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002515552,"about_ca_topic_score_gemma":0.0002516671,"domain_scores_codex":[0.999345,0.00005755032,0.0001697229,0.0002400495,0.00004767648,0.0001400223],"domain_scores_gemma":[0.9994435,0.0002423946,0.0000840781,0.0000787538,0.0001111673,0.00004010512],"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":[0.00009888529,0.000019111,0.0340422,0.00005801152,0.00004837807,1.203048e-7,0.0004158537,0.00006528691,0.964391,0.0001698969,0.00002841381,0.000662819],"study_design_scores_gemma":[0.000825335,0.0006343811,0.0219892,0.0001553328,0.0000648252,0.000005941232,0.0001718986,0.004910377,0.969954,0.001004809,0.0001201186,0.000163769],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9951744,0.002720578,0.001570243,0.0001121252,0.00003029757,0.000302111,0.00001692304,0.000001492229,0.00007185085],"genre_scores_gemma":[0.9942748,0.002735327,0.002814858,0.0000589376,0.00005550847,0.00002582523,0.000003859135,0.00001205008,0.00001883399],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.012053,"threshold_uncertainty_score":0.4509122,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05280666350839595,"score_gpt":0.2771262555600887,"score_spread":0.2243195920516927,"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."}}