{"id":"W4388300747","doi":"10.1101/2023.11.02.565359","title":"A Novel Tiled-Amplicon Sequencing Assay Targeting the <i>Tomato Brown Rugose Fruit Virus</i> ( <i>ToBRFV</i> ) Genome Reveals Widespread Distribution in Municipal Wastewater Treatment Systems in the Province of Ontario, Canada","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Plant Virus Research Studies","field":"Agricultural and Biological Sciences","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo","funders":"Ministry of Environment","keywords":"Biology; Genome; Amplicon; Plant virus; Virus; Begomovirus; Lineage (genetic); Virology; Genetics; Computational biology; Biotechnology; Gene; Polymerase chain reaction","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true,"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":[0.00032614,0.000573165,0.0004085437,0.001012487,0.0006181461,0.0006637973,0.0004790369,0.0005643631,0.001699971],"category_scores_gemma":[0.0008360413,0.0003235969,0.0006010598,0.0007277802,0.000492222,0.0001927081,0.0004155375,0.0004466759,0.0008519645],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001771602,"about_ca_system_score_gemma":0.001693625,"about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.09909957,"about_ca_topic_score_gemma":0.2869767,"domain_scores_codex":[0.9991671,0.00004099415,0.00003644767,0.0003277905,0.0002952494,0.0001324883],"domain_scores_gemma":[0.9994765,0.00008113187,0.0001137538,0.0000448119,0.0001968558,0.00008692317],"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":[0.0001862014,0.00004474638,0.01896162,0.00009847579,0.00004212659,0.0001157831,0.0003062407,0.0008269453,0.9714521,0.0001967943,0.0006707034,0.007098231],"study_design_scores_gemma":[0.00002658778,0.0004912994,0.2061974,0.00006747444,0.0001509328,0.0005508136,0.0006111134,0.01650758,0.7584679,0.0002192344,0.01662435,0.00008541893],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9316853,0.0006412438,0.04416805,0.0002108289,0.00007154215,0.0002145983,0.01598218,0.001572706,0.005453606],"genre_scores_gemma":[0.8516911,0.0005966272,0.1158742,0.0005256744,0.00001909015,0.0002569783,0.02165251,0.0002703534,0.009113444],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9009004,"threshold_uncertainty_score":0.1970455,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03581801356752587,"score_gpt":0.223896602843665,"score_spread":0.1880785892761391,"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."}}