{"id":"W4399506458","doi":"10.1016/j.xplc.2024.101000","title":"Haplotype-resolved T2T genome assemblies and pangenome graph of pear reveal diverse patterns of allele-specific expression and the genomic basis of fruit quality traits","year":2024,"lang":"en","type":"article","venue":"Plant Communications","topic":"Plant Reproductive Biology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":37,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"National Key Research and Development Program of China; Earmarked Fund for China Agriculture Research System; Jiangsu Provincial Key Research and Development Program; Nanjing Agricultural University; Priority Academic Program Development of Jiangsu Higher Education Institutions; Jiangsu Agricultural Science and Technology Innovation Fund; Government of Jiangsu Province; Natural Science Foundation of Jiangsu Province; National Natural Science Foundation of China","keywords":"PEAR; Allele; Haplotype; Biology; Genetics; Genome; Gene; Botany","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005764725,0.0006389073,0.0005368804,0.001491167,0.000650783,0.0007789395,0.0004374716,0.0004896375,0.002483056],"category_scores_gemma":[0.001727322,0.0003784782,0.001008051,0.002224251,0.0002156803,0.0006545353,0.0006596806,0.0008558892,0.0007173335],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003324584,"about_ca_system_score_gemma":0.0004267461,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002296421,"about_ca_topic_score_gemma":0.004437252,"domain_scores_codex":[0.9997699,0.00003071516,0.00002473273,0.0001065339,0.00004446397,0.00002369958],"domain_scores_gemma":[0.9992772,0.0002299382,0.0001586914,0.0000941348,0.0001512571,0.00008876911],"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":[0.001378516,0.000155997,0.0456766,0.002251903,0.0008352977,0.00221296,0.002059796,0.01336524,0.8481049,0.003935603,0.007892851,0.07213034],"study_design_scores_gemma":[0.0003720817,0.0009870195,0.5174395,0.0004605457,0.001833127,0.004136962,0.00182054,0.1276802,0.1681435,0.01109632,0.1656144,0.0004157828],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8004092,0.001349951,0.1164945,0.0003209098,0.0001264493,0.0002910997,0.07066187,0.004058009,0.00628801],"genre_scores_gemma":[0.6322886,0.001187112,0.165703,0.0001835983,0.00004380403,0.0005273741,0.1952253,0.002632735,0.002208484],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002483056,"threshold_uncertainty_score":0.008306682,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04700141443307911,"score_gpt":0.2780209719956517,"score_spread":0.2310195575625726,"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."}}