{"id":"W2896755628","doi":"10.3390/ijms19103142","title":"Differences in Codon Usage Bias between Photosynthesis-Related Genes and Genetic System-Related Genes of Chloroplast Genomes in Cultivated and Wild Solanum Species","year":2018,"lang":"en","type":"article","venue":"International Journal of Molecular Sciences","topic":"Photosynthetic Processes and Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":89,"is_retracted":false,"has_abstract":true,"ca_institutions":"Agriculture and Agri-Food Canada","funders":"Fundamental Research Funds for the Central Universities; National Natural Science Foundation of China","keywords":"Gene; Biology; Genome; Genetics; Chloroplast; Solanum; Botany","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":[0.0005021847,0.0001558511,0.0002895173,0.000321159,0.00004856443,0.00005774472,0.0004424378,0.0001117055,0.00001002091],"category_scores_gemma":[0.0001131294,0.0001227557,0.00005132047,0.0002172085,0.0005068199,0.00002285969,0.0001413154,0.00008462887,5.091518e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000204307,"about_ca_system_score_gemma":0.0001205995,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007068616,"about_ca_topic_score_gemma":0.00006371046,"domain_scores_codex":[0.9984671,0.0001014936,0.000589716,0.0002696665,0.0003851017,0.0001869461],"domain_scores_gemma":[0.9991645,0.00005055428,0.0004152955,0.00008376635,0.0002158251,0.00007005004],"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":[0.00004773084,0.00003678601,0.08540125,0.00001788867,0.00008506056,0.0000441462,0.0002058355,0.00002403044,0.9108004,0.00009582233,6.625466e-7,0.003240399],"study_design_scores_gemma":[0.0006457831,0.0004683602,0.04139972,0.0002725207,0.00002312308,0.0002512714,0.0007087151,0.0004618627,0.9552993,0.0002071753,0.0001085504,0.0001536331],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9952593,0.003728338,0.0004143947,0.0001066138,0.0002048705,0.00009685097,0.00001811544,0.000003137798,0.0001683624],"genre_scores_gemma":[0.9974944,0.001902184,0.0004918271,0.00002049266,0.00005561303,0.000002387094,0.000003075513,0.000008590936,0.00002143167],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0444989,"threshold_uncertainty_score":0.5005831,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01862648590019211,"score_gpt":0.2462787726030684,"score_spread":0.2276522867028763,"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."}}