{"id":"W2108646201","doi":"10.1101/gad.259796.115","title":"Hypoxia drives transient site-specific copy gain and drug-resistant gene expression","year":2015,"lang":"en","type":"article","venue":"Genes & Development","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":81,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Structural Genomics Consortium; Janssen Biotech; National Center for Chronic Disease Prevention and Health Promotion; Canadian Institutes of Health Research; American Cancer Society; American Lung Association; Ministero dello Sviluppo Economico; Canada Foundation for Innovation; National Institute of General Medical Sciences; Ontario Genomics Institute; National Institutes of Health; Ontario Genomics; Rivkin Center for Ovarian Cancer; Wellcome Trust; Eli Lilly and Company; Genome Canada; Ontario Ministry of Economic Development and Innovation; National Cancer Institute; Novartis Foundation; Wellcome; Massachusetts General Hospital; GlaxoSmithKline; Boehringer Ingelheim; Natural Sciences and Engineering Research Council of Canada; Pfizer; Takeda Pharmaceutical Company; AbbVie; Canadian Lung Association; Jane Coffin Childs Memorial Fund for Medical Research; Leukemia and Lymphoma Society","keywords":"Biology; Copy-number variation; Gene duplication; Gene; Hypoxia (environmental); Zebrafish; Cancer research; Tumor hypoxia; Genetics; Molecular biology; Genome; Internal medicine","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":[0.0001876564,0.0001955631,0.0001534493,0.00004025211,0.0001044184,0.00004502037,0.0001240712,0.00008310858,0.0000122803],"category_scores_gemma":[0.00001522689,0.0001851527,0.00003749057,0.00004798942,0.0000561615,0.000002464245,0.0001503457,0.00004361567,0.00001945005],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005107456,"about_ca_system_score_gemma":0.0002304292,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000101923,"about_ca_topic_score_gemma":0.00007333794,"domain_scores_codex":[0.998841,0.00003180098,0.0002515795,0.0004272449,0.0001764708,0.0002718553],"domain_scores_gemma":[0.9993462,0.0000131628,0.00006015165,0.0002559779,0.00009022778,0.0002343051],"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":[0.0001586969,0.00005345489,0.00137206,0.0000112437,0.00002099072,0.00001011669,0.0009393161,0.0001616987,0.9707772,0.00002375518,0.015539,0.01093249],"study_design_scores_gemma":[0.0005039691,0.00005047554,0.002276236,0.00001145904,0.000005426383,0.000005200319,0.0001499027,0.000004889323,0.5677783,0.00002466485,0.4289945,0.0001949581],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9788077,0.01757839,0.002539961,0.000133801,0.0002911451,0.000196163,0.00002793365,0.0000130955,0.0004117808],"genre_scores_gemma":[0.96544,0.004877682,0.02832348,0.0002687158,0.0002324171,0.00005578038,0.0002528795,0.00003357185,0.0005155205],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4134555,"threshold_uncertainty_score":0.7550309,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01408988460219798,"score_gpt":0.2231681785065117,"score_spread":0.2090782939043137,"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."}}