{"id":"W2147217717","doi":"10.1073/pnas.012422299","title":"Sequence evolution and copy number of Ty1- <i>copia</i> retrotransposons in diverse plant genomes","year":2001,"lang":"en","type":"article","venue":"Proceedings of the National Academy of Sciences","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":37,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Retrotransposon; Nonsynonymous substitution; Transposable element; Biology; Phylogenetic tree; Genetics; Negative selection; Genome; Sequence (biology); Molecular evolution; Genome evolution; Phylogenetics; Retroposon; Low copy number; Evolutionary biology; Gene","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000355318,0.0001618373,0.0001878657,0.0009908859,0.0002304368,0.0005075783,0.0002744186,0.0003905337,0.0003622104],"category_scores_gemma":[0.001317452,0.0001980053,0.0002027485,0.0005322603,0.0002789193,0.0002720389,0.0001540027,0.0003313557,0.0001189966],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004212152,"about_ca_system_score_gemma":0.0001130444,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001022645,"about_ca_topic_score_gemma":0.001330794,"domain_scores_codex":[0.9998239,0.00004407507,0.00001179849,0.00006476868,0.00003509658,0.00002050397],"domain_scores_gemma":[0.9991838,0.0003999815,0.0001800645,0.0000597421,0.00008871123,0.00008760967],"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":[0.0007674471,0.00009337167,0.3259482,0.0001590089,0.0001853777,0.0003436456,0.0009035952,0.01310714,0.6380325,0.0009030929,0.00007456907,0.01948214],"study_design_scores_gemma":[0.0000383099,0.0002846449,0.9353138,0.00002253556,0.0001202925,0.001142785,0.0002957406,0.02468706,0.03647578,0.0006469903,0.0009297735,0.00004234292],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9996817,0.00005505775,0.0001133605,0.000004884258,2.117802e-7,8.503587e-7,0.00006006157,0.00000362201,0.00008026104],"genre_scores_gemma":[0.9989698,0.00006742704,0.0004355034,0.000004632074,9.963293e-7,0.00000277733,0.0004110374,0.000004830294,0.0001030092],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001022645,"threshold_uncertainty_score":0.003056109,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04655402044839985,"score_gpt":0.2740290956988961,"score_spread":0.2274750752504963,"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."}}