{"id":"W2094539723","doi":"10.1007/s12284-010-9054-7","title":"Dynamic Oryza Genomes: Repetitive DNA Sequences as Genome Modeling Agents","year":2010,"lang":"en","type":"article","venue":"Rice","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"College of Engineering, Michigan State University; McGill University; Michigan State University; National Science Foundation","keywords":"Genome; Transposable element; Biology; Genome evolution; Repeated sequence; Genetics; Oryza; DNA sequencing; Oryza sativa; Context (archaeology); Evolutionary biology; Genome project; Genomics; DNA; 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":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0001104482,0.0001072693,0.0001001659,0.000009211984,0.0002609455,0.00005646273,0.0002371314,0.00007940922,0.001567534],"category_scores_gemma":[0.00003815987,0.00004290471,0.00006281877,0.0002259932,0.00003404417,0.00008208802,0.00006207774,0.0001334447,0.0004214542],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001841122,"about_ca_system_score_gemma":0.00001660456,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003613331,"about_ca_topic_score_gemma":0.001226474,"domain_scores_codex":[0.9991617,0.0000254165,0.0001506392,0.0002834911,0.0001585782,0.0002201651],"domain_scores_gemma":[0.9996578,0.00005782053,0.00005205009,0.00006578608,0.00006793167,0.00009862937],"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":[0.000003998695,0.00004550345,0.0003541789,0.000002877547,0.00001274928,0.000007748483,0.0002426213,0.0001934515,0.9946316,0.0006309928,0.000006769271,0.00386754],"study_design_scores_gemma":[0.0009666344,0.001252527,0.6438748,0.00007637466,0.0002114646,0.0003890307,0.004705414,0.12739,0.007914961,0.0651595,0.1452919,0.002767384],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9912232,0.0001065931,0.00001557775,0.0009889971,0.0001975575,0.0001240166,0.00004864671,0.00006140462,0.007234063],"genre_scores_gemma":[0.9979573,0.00008219619,0.0003577008,0.0002711329,0.0001750681,0.00001388691,0.00006752065,9.171879e-7,0.001074241],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9867166,"threshold_uncertainty_score":0.9993452,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01826963887532923,"score_gpt":0.2389176137422604,"score_spread":0.2206479748669311,"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."}}