{"id":"W2899336126","doi":"10.1186/s13059-018-1564-4","title":"Phytophthora methylomes are modulated by 6mA methyltransferases and associated with adaptive genome regions","year":2018,"lang":"en","type":"article","venue":"Genome biology","topic":"Cancer-related gene regulation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":63,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Biotechnology and Biological Sciences Research Council; Agriculture and Agri-Food Canada; Recruitment Program of Global Experts; Nanjing Agricultural University; Zhejiang University; Chinese Academy of Sciences; Sun Yat-sen University; Ohio State University","keywords":"Biology; Transposable element; DNA methylation; Genome; Genetics; Epigenetics; Methyltransferase; Gene; Methylated DNA immunoprecipitation; Phytophthora infestans; Methylation; Genome evolution; Gene expression","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":[0.0001721785,0.0002755595,0.0003207941,0.00009237018,0.0001756981,0.0000164885,0.0001557922,0.0004185495,0.00004209967],"category_scores_gemma":[0.00005594523,0.0002428537,0.00006493219,0.0002555593,0.0005168128,0.00000633396,0.00006833826,0.0001147958,0.000009120972],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005498814,"about_ca_system_score_gemma":0.00006922555,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004443288,"about_ca_topic_score_gemma":0.0001756331,"domain_scores_codex":[0.9984205,0.0002063267,0.0002332812,0.0006545536,0.00008036851,0.000404918],"domain_scores_gemma":[0.9991188,0.00003039485,0.0001591741,0.0003413613,0.0002295328,0.000120703],"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":[0.0002359023,0.00004196246,0.001038701,0.000003994447,0.0004006076,0.000001770559,0.00006466181,0.00004881033,0.9972328,0.00004082488,0.00024087,0.0006490998],"study_design_scores_gemma":[0.004955544,0.00971113,0.2985469,0.00006886151,0.0005036293,0.0001454409,0.0004397708,0.0003153729,0.5780895,0.001452138,0.1036185,0.002153245],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9856034,0.007148225,0.005918394,0.0002835959,0.0001095998,0.000331738,0.0003327233,0.00004430085,0.0002280601],"genre_scores_gemma":[0.99687,0.0005283278,0.0004332197,0.0001756347,0.0002904237,0.00003947968,0.001060082,0.00004374232,0.0005590537],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4191433,"threshold_uncertainty_score":0.9903287,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01275089521567797,"score_gpt":0.2411613881554407,"score_spread":0.2284104929397628,"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."}}