{"id":"W4362595709","doi":"10.1158/1538-7445.am2023-3142","title":"Abstract 3142: Enabling whole genome sequencing analysis from FFPE specimens in clinical oncology","year":2023,"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":"BC Cancer Agency","funders":"","keywords":"Indel; Concordance; Whole genome sequencing; Genome; Biology; Genetics; Computational biology; DNA sequencing; INDEL Mutation; Mutation; Gene; Single-nucleotide polymorphism","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":[0.003553257,0.0006329179,0.000434692,0.0007008564,0.0003526573,0.0009646877,0.000755478,0.0009708127,0.00489035],"category_scores_gemma":[0.005731684,0.0004177164,0.0005923694,0.0006384632,0.0003141344,0.0005756996,0.0007866158,0.0007542857,0.003424479],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003651353,"about_ca_system_score_gemma":0.0008885324,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002187289,"about_ca_topic_score_gemma":0.003166297,"domain_scores_codex":[0.9987615,0.0003203888,0.00007716107,0.0003930063,0.0003624451,0.00008548253],"domain_scores_gemma":[0.9978787,0.0009830059,0.000182061,0.0002513146,0.0005598597,0.0001452038],"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":[0.002011507,0.0002980864,0.05707144,0.0008842715,0.0002816219,0.0009581788,0.0004659546,0.03468281,0.5458246,0.00217671,0.03228736,0.3230574],"study_design_scores_gemma":[0.0003139356,0.001025452,0.09261392,0.0002515495,0.0001922113,0.003035311,0.0002038859,0.4797545,0.3533418,0.008165849,0.06094395,0.0001576334],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.274701,0.002398154,0.6799939,0.00137742,0.0002592333,0.0007641031,0.01360827,0.02232986,0.004568073],"genre_scores_gemma":[0.3789787,0.0006252575,0.5947024,0.0005598183,0.0001481018,0.0005903193,0.02039189,0.001589199,0.002414442],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.00489035,"threshold_uncertainty_score":0.01879162,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1682508120328115,"score_gpt":0.4700158524644575,"score_spread":0.301765040431646,"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."}}