{"id":"W4412644618","doi":"10.1101/2025.07.20.665775","title":"Integrated multi-omics analysis reveals divergent molecular responses in Palmer amaranth ( <i>Amaranthus palmeri</i> ) biotypes susceptible and resistant to glyphosate","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Plant Pathogens and Resistance","field":"Agricultural and Biological Sciences","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"National Institute of Food and Agriculture","keywords":"Amaranth; Glyphosate; Biology; Herbicide resistance; Agronomy; Weed","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.00082534,0.0006563882,0.001030852,0.0003342315,0.0002326564,0.000237018,0.0006322067,0.0005374327,0.00005835997],"category_scores_gemma":[0.0002596017,0.0003519548,0.0002832296,0.002357472,0.0001298744,0.00006480418,0.0005768528,0.0005176261,0.00001437949],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000154522,"about_ca_system_score_gemma":0.0001052559,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001275456,"about_ca_topic_score_gemma":0.00108137,"domain_scores_codex":[0.996397,0.0003681874,0.0007513712,0.001442524,0.0003587162,0.0006822309],"domain_scores_gemma":[0.9984087,0.0001909214,0.0003192934,0.0004394128,0.0003101772,0.0003314971],"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":[0.000458978,0.0001220236,0.0357779,0.00009493337,0.0003031141,0.0002022781,0.000007215395,0.00008251194,0.962775,0.000101434,0.00005864773,0.00001597488],"study_design_scores_gemma":[0.0003431188,0.0001269149,0.8159474,0.0006155506,0.0004353182,2.04995e-8,0.00001515099,0.0002954019,0.1759356,0.000001769291,0.005266095,0.00101773],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.989061,0.003401693,0.0001056767,0.00052831,0.0002689768,0.0007879789,0.005690765,0.0001463112,0.000009295612],"genre_scores_gemma":[0.9943551,0.001967679,0.003086872,0.0003638024,0.00004688988,0.00009648465,0.000007807429,0.000008115446,0.00006717825],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7868394,"threshold_uncertainty_score":0.9998932,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01420284794099212,"score_gpt":0.2162160883459966,"score_spread":0.2020132404050045,"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."}}