{"id":"W1992251814","doi":"10.1101/gr.136572.111","title":"nFuse: Discovery of complex genomic rearrangements in cancer using high-throughput sequencing","year":2012,"lang":"en","type":"article","venue":"Genome Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":77,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Michael Smith Health Research BC","keywords":"Biology; Computational biology; Breakpoint; Genome; DNA sequencing; Gene; Genetics; Genomics","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0008224683,0.0001254737,0.0002021115,0.0001306454,0.0001049632,0.00001848376,0.000240744,0.00008312856,0.00003821263],"category_scores_gemma":[0.00003181506,0.0001239009,0.00005129611,0.0002093181,0.0001627313,0.000002794205,0.0004589874,0.0001268747,0.000005280087],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001814767,"about_ca_system_score_gemma":0.0001781579,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002398478,"about_ca_topic_score_gemma":0.0002294325,"domain_scores_codex":[0.9984324,0.0001455137,0.000257252,0.0002805236,0.0002378092,0.0006464775],"domain_scores_gemma":[0.9993888,0.00002025609,0.00006092732,0.000347605,0.0001120928,0.00007033385],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00004064286,0.00004721827,0.05177543,0.00004580332,0.00006521976,0.000001026012,0.0003391923,0.000544289,0.9467032,0.00008795961,0.00005316064,0.0002968539],"study_design_scores_gemma":[0.001342395,0.0003071936,0.7480152,0.00005218981,0.00002882018,0.000009181837,0.001330484,0.0001240078,0.2325102,0.000319495,0.01546462,0.0004962632],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9913895,0.007500439,0.00008637339,0.00004384484,0.000114658,0.0002664433,0.0001142336,9.418885e-7,0.0004836392],"genre_scores_gemma":[0.9963329,0.001740416,0.001262167,0.00002911258,0.0003599912,0.00002995134,0.00002872953,0.00002704738,0.0001896559],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.714193,"threshold_uncertainty_score":0.5052531,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.2007263584693446,"score_gpt":0.4054542006344476,"score_spread":0.204727842165103,"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."}}