{"id":"W4413376733","doi":"10.1093/clinchem/hvaf093","title":"Interdisciplinary Collaboration to Develop a Custom Genomic Analysis Pipeline for the Clinical Laboratory: Hepatitis B Virus and Cytomegalovirus Antiviral Resistance Genotyping","year":2025,"lang":"en","type":"article","venue":"Clinical Chemistry","topic":"Hepatitis B Virus Studies","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"St. Paul's Hospital; University of British Columbia","funders":"","keywords":"Genotyping; Hepatitis B virus; Virology; Genotype; DNA sequencing; Biology; Virus; Gene; Genetics","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":[0.001980113,0.0002855161,0.001055976,0.00009750111,0.0004652916,0.00007901015,0.0002498932,0.0003233871,0.00002246701],"category_scores_gemma":[0.006495482,0.0002329522,0.0002707638,0.002033364,0.0004372037,0.00007352213,0.0005809385,0.0004900219,0.00002278022],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001946654,"about_ca_system_score_gemma":0.0007011098,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005338967,"about_ca_topic_score_gemma":0.005799178,"domain_scores_codex":[0.9969128,0.0001414318,0.001555128,0.0008188596,0.000205412,0.0003663153],"domain_scores_gemma":[0.9956264,0.002187979,0.0002823568,0.0006821791,0.001009835,0.0002112291],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.001846226,0.000257495,0.9382297,0.0003381211,0.002006782,0.00003408668,0.0002796239,0.000006291874,0.003462404,0.00006309033,0.04305651,0.01041972],"study_design_scores_gemma":[0.003195149,0.0001754634,0.8102095,0.0003700275,0.003895731,0.000002004157,0.0003787949,0.002963122,0.007327693,0.0001706745,0.1707426,0.0005692132],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9763256,0.002205316,0.007802767,0.01064814,0.0004248791,0.0009254323,0.0004175723,0.0001021218,0.001148174],"genre_scores_gemma":[0.9872807,0.001957916,0.00405181,0.002693787,0.0006660581,0.0001837837,0.00008251737,0.0000320756,0.003051397],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1280202,"threshold_uncertainty_score":0.9499514,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03245564167954362,"score_gpt":0.3998465626101189,"score_spread":0.3673909209305753,"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."}}