{"id":"W4411310043","doi":"10.1007/978-1-0716-4615-1_27","title":"RBD Amplicon Sequencing and Evolutionary Analysis of SARS-CoV-2 Variants from Wastewater Samples","year":2025,"lang":"en","type":"article","venue":"Methods in molecular biology","topic":"SARS-CoV-2 detection and testing","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Calgary","funders":"","keywords":"Amplicon; Amplicon sequencing; Biology; Computational biology; Evolutionary biology; Genetics; Gene; Polymerase chain reaction","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":[0.0006995029,0.0001408718,0.0005769137,0.0007903824,0.00003386782,0.000005919878,0.0000784495,0.0001979315,0.00001258051],"category_scores_gemma":[0.001184798,0.0001263586,0.000120275,0.0009695089,0.0001382391,0.0000185396,0.0001022127,0.0001814163,8.554745e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007972891,"about_ca_system_score_gemma":0.00006854194,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001626109,"about_ca_topic_score_gemma":0.00006330614,"domain_scores_codex":[0.9982271,0.0007048824,0.0004082156,0.0004018392,0.00005685224,0.0002010834],"domain_scores_gemma":[0.9989564,0.0005471904,0.0000995845,0.0003116406,0.00006796455,0.00001724583],"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":[0.00005041303,0.00002324694,0.04032743,0.00002028303,0.0005976547,0.00001981959,0.00009133953,0.00001163269,0.9514369,0.000607735,0.00000362449,0.006809877],"study_design_scores_gemma":[0.000558831,0.00006374136,0.02173073,0.00005820995,0.000592502,0.00001311782,0.00008729988,0.004821558,0.9626216,0.009042869,0.0003112369,0.00009826916],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.6125687,0.0005824844,0.3861449,0.00006854233,0.00008472287,0.00009428038,0.00001099943,0.00002155618,0.000423836],"genre_scores_gemma":[0.4461271,0.000008523799,0.5526537,0.001148511,0.00001200545,0.0000116288,0.00002327102,0.000007976962,0.000007355598],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.1665087,"threshold_uncertainty_score":0.5152754,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07915080203738378,"score_gpt":0.4212975226749993,"score_spread":0.3421467206376155,"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."}}