{"id":"W2960706662","doi":"10.1038/s41434-019-0091-6","title":"A next-generation sequencing method for gene doping detection that distinguishes low levels of plasmid DNA against a background of genomic DNA","year":2019,"lang":"en","type":"article","venue":"Gene Therapy","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":48,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"World Anti-Doping Agency","keywords":"Biology; Plasmid; DNA sequencing; DNA; genomic DNA; Gene; Genetics; Sequencing by ligation; Computational biology; DNA nanoball sequencing; Molecular biology; Genomic library; Virology; Base sequence","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003069847,0.000175682,0.000240448,0.00005880266,0.00004806407,0.00001853448,0.0001346641,0.000126651,0.00001051366],"category_scores_gemma":[0.00001538615,0.0001769924,0.0001450265,0.00006138624,0.00002154855,0.000006619321,0.00003310876,0.00004466583,0.000001133055],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003731352,"about_ca_system_score_gemma":0.00006900914,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002263889,"about_ca_topic_score_gemma":0.00003004735,"domain_scores_codex":[0.9990346,0.00004583889,0.0002869033,0.0003179126,0.0001034051,0.0002112892],"domain_scores_gemma":[0.9993616,0.00002810498,0.0001652937,0.0003098377,0.00009689111,0.00003824165],"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":[0.00008418534,0.00001646739,0.0001223323,0.0000673457,0.00009062176,1.813673e-7,0.0001565547,0.01088805,0.9721206,0.000004473527,0.000005656701,0.01644353],"study_design_scores_gemma":[0.0008719819,0.0002907379,0.001000372,0.00001910043,0.00001368496,0.000005696795,0.0001299236,0.0120079,0.9851009,0.00001997703,0.0003499383,0.0001897751],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7517262,0.001075009,0.2465482,0.000006602015,0.0002417072,0.0003303254,0.00003584854,0.000008710631,0.00002744275],"genre_scores_gemma":[0.9745939,0.0003519777,0.02446111,0.00006374059,0.0003313218,0.00003007074,0.00008245691,0.00003944364,0.00004595848],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2228678,"threshold_uncertainty_score":0.721754,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06076921619368045,"score_gpt":0.3143895871252087,"score_spread":0.2536203709315282,"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."}}