{"id":"W4392185177","doi":"10.1093/plphys/kiae078","title":"High-quality genome assembly enables prediction of allele-specific gene expression in hybrid poplar","year":2024,"lang":"en","type":"article","venue":"PLANT PHYSIOLOGY","topic":"Bioenergy crop production and management","field":"Agricultural and Biological Sciences","cited_by":41,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval; University of British Columbia","funders":"National Key Research and Development Program of China; Chinese Academy of Forestry; National Natural Science Foundation of China","keywords":"Allele; Gene; Genome; Biology; Genetics; Gene expression; Computational biology","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":[0.0002159442,0.0001044531,0.0001854656,0.00002939907,0.00004931137,0.00001594182,0.0001311657,0.0000622386,0.0002527876],"category_scores_gemma":[0.000006934326,0.00004292062,0.00005105818,0.0001508312,0.00004083327,0.00008391846,0.00007843168,0.00009298265,0.00002310251],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000267453,"about_ca_system_score_gemma":0.000003935133,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002151264,"about_ca_topic_score_gemma":0.00006059404,"domain_scores_codex":[0.9989527,0.0001186641,0.000264972,0.0003717106,0.0001052616,0.0001866649],"domain_scores_gemma":[0.9997652,0.00005623746,0.00005777926,0.0000683991,0.00001945968,0.00003295437],"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":[0.00005639978,0.00007906465,0.00003550762,0.00002590807,0.00001141107,0.000005276542,0.00002522807,0.0001193616,0.9930623,0.001561266,0.001995008,0.003023257],"study_design_scores_gemma":[0.0001616913,0.0002229999,0.1717903,0.00003441606,0.000006831697,0.00001096749,0.0001163615,0.00008919737,0.6165826,0.001573513,0.2092381,0.0001729788],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9976443,0.0007670489,0.00002996249,0.000515486,0.0004409723,0.0001121076,0.0003021075,0.00007788683,0.0001101342],"genre_scores_gemma":[0.9970255,0.001082224,0.0001182507,0.00005976047,0.0003579512,0.00001798728,0.0011765,9.836832e-7,0.0001608465],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3764797,"threshold_uncertainty_score":0.2767847,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03026228218509159,"score_gpt":0.2186029256686725,"score_spread":0.1883406434835809,"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."}}