{"id":"W2563906526","doi":"10.1158/1538-7445.am2015-628","title":"Abstract 628: Determinants of quality of next-generation sequencing output from the strand-specific TruSight Tumor Sequencing Panel in a clinical diagnostic setting","year":2015,"lang":"en","type":"article","venue":"Cancer Research","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre","funders":"","keywords":"Sanger sequencing; DNA sequencing; Deep sequencing; Amplicon sequencing; Massive parallel sequencing; Transversion; Genetics; Biology; Amplicon; Computational biology; Illumina dye sequencing; DNA; Mutation; Gene; Genome; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.009200329,0.0003033604,0.0003761963,0.0009394201,0.0002855743,0.001638299,0.0003700076,0.0008347485,0.002554159],"category_scores_gemma":[0.03483101,0.0002668595,0.000341882,0.0006684061,0.0005393542,0.000656184,0.0004369521,0.0005385515,0.001240827],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003276024,"about_ca_system_score_gemma":0.0002481432,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009262423,"about_ca_topic_score_gemma":0.0007735385,"domain_scores_codex":[0.9944852,0.001829411,0.0007550495,0.0009641853,0.001627329,0.0003387888],"domain_scores_gemma":[0.9702679,0.01894694,0.003904703,0.0012359,0.004889166,0.0007554342],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.003908951,0.0001334575,0.8357185,0.0001531242,0.0002882144,0.0005640531,0.0004002833,0.00221547,0.1382756,0.0001541455,0.000770266,0.01741797],"study_design_scores_gemma":[0.00009002416,0.001882508,0.7960047,0.00006876623,0.000340894,0.00357435,0.0003116461,0.01791828,0.1774418,0.0004130529,0.001885408,0.00006857736],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9929388,0.0007821291,0.004671256,0.0001625658,0.00002838941,0.00003912701,0.0004986853,0.0000733959,0.000805644],"genre_scores_gemma":[0.9950988,0.0000884325,0.003605674,0.0001287148,0.00001967401,0.00002073464,0.0007108991,0.00005232082,0.0002748179],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.009200329,"threshold_uncertainty_score":0.04865658,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.4433113677257359,"score_gpt":0.4503486999254398,"score_spread":0.007037332199703927,"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."}}