{"id":"W2184109305","doi":"10.1038/ncomms2596","title":"Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution","year":2013,"lang":"en","type":"article","venue":"Nature Communications","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":215,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics and Developmental Biology, Chinese Academy of Sciences; Chinese Academy of Sciences; Institute of Genetics; Agriculture and Agri-Food Canada; National Natural Science Foundation of China","keywords":"Genome; Biology; Oryza; Retrotransposon; Genome evolution; Genetics; Oryza sativa; Gene; Whole genome sequencing; Transposable element","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000246959,0.0001436831,0.0001945995,0.00003268817,0.0005688394,0.00005669189,0.001034729,0.0002737936,0.0004442178],"category_scores_gemma":[0.0001234332,0.00007066176,0.0001091347,0.0005969885,0.00009846847,0.000200267,0.0003199616,0.000444194,0.0001323705],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001216032,"about_ca_system_score_gemma":0.00003494019,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004013321,"about_ca_topic_score_gemma":0.00144924,"domain_scores_codex":[0.9987894,0.0001727164,0.0003568533,0.000229054,0.0002114554,0.0002404635],"domain_scores_gemma":[0.9985985,0.0003065022,0.0002136994,0.0004751813,0.0003103892,0.00009571622],"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":[0.000001103597,0.00005518036,0.0003757835,0.000004613215,0.00001775563,1.324046e-7,0.0001281996,0.00002410915,0.9770719,0.02142936,0.00003526365,0.0008565924],"study_design_scores_gemma":[0.0002240781,0.0001952757,0.908017,0.00005915061,0.00006892218,0.00002247656,0.001712835,0.0007107136,0.001486008,0.07153826,0.01549901,0.0004662972],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.972978,0.005425728,0.0006084767,0.01372284,0.0001833141,0.00101561,0.0003943252,0.0001865541,0.005485175],"genre_scores_gemma":[0.993024,0.0001088647,0.00569911,0.0002694501,0.00004869288,0.00006608091,0.0004861864,0.000002278626,0.0002953579],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9755859,"threshold_uncertainty_score":0.4863874,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04642121056978315,"score_gpt":0.2660530948110986,"score_spread":0.2196318842413155,"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."}}