{"id":"W4413189385","doi":"10.3390/plants14162509","title":"Transposon Dynamics Drive Genome Evolution and Regulate Genetic Mechanisms of Agronomic Traits in Cotton","year":2025,"lang":"en","type":"article","venue":"Plants","topic":"Plant Virus Research Studies","field":"Agricultural and Biological Sciences","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ministry of Agriculture","funders":"National Natural Science Foundation of China","keywords":"Biology; Genome; Polyploid; Ploidy; Genetics; Transposable element; Evolutionary dynamics; Gossypium; Phenotype; Genome evolution; Gene; Evolutionary biology; Computational biology; Population","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":[0.00009388891,0.00007503466,0.0001515824,0.00003095265,0.0000524985,0.000008228717,0.0001050178,0.00005353805,0.000008617992],"category_scores_gemma":[0.00001062312,0.00003367715,0.00002026646,0.0001276777,0.00004429239,0.00003530922,0.00003237234,0.00005858064,0.000002439196],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005378853,"about_ca_system_score_gemma":0.000007056358,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004349237,"about_ca_topic_score_gemma":0.006149982,"domain_scores_codex":[0.9993828,0.00004087053,0.0001418403,0.0001668916,0.00008633247,0.0001812806],"domain_scores_gemma":[0.9998133,0.00009502327,0.0000313976,0.0000192747,0.00001253737,0.00002853587],"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":[0.00005921417,0.00002791906,0.001745606,0.00001787659,0.00001549585,0.000004018334,0.00009101937,0.0000365541,0.9889876,0.0007072754,0.000008088236,0.008299318],"study_design_scores_gemma":[0.0001565628,0.00007205871,0.988913,0.00004555748,0.000005273335,0.000002058415,0.0002203526,0.001625785,0.004938066,0.003926564,0.0000272743,0.00006747076],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983384,0.0003485758,0.0000786377,0.0001807575,0.00002279016,0.0001689002,0.0006397661,0.00001113167,0.0002110105],"genre_scores_gemma":[0.9994085,0.0003535053,0.00006567561,0.00001214004,0.000007258611,0.000006606221,0.00005846127,3.225904e-7,0.00008754386],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9871674,"threshold_uncertainty_score":0.3431834,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01149086868880832,"score_gpt":0.2132533502935537,"score_spread":0.2017624816047454,"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."}}