{"id":"W3047830475","doi":"10.1093/bioinformatics/btaa700","title":"FastBMD: an online tool for rapid benchmark dose–response analysis of transcriptomics data","year":2020,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Gene expression and cancer classification","field":"Biochemistry, Genetics and Molecular Biology","cited_by":45,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Genome Canada","keywords":"Benchmark (surveying); Computer science; Transcriptome; Data mining; Biology","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.01592587,0.004523696,0.003938648,0.005860208,0.001518368,0.003977318,0.006547988,0.00263415,0.09442213],"category_scores_gemma":[0.03182748,0.002912014,0.004035449,0.004306855,0.00119814,0.003440802,0.004888235,0.004247718,0.05086457],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001835138,"about_ca_system_score_gemma":0.004371617,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003788267,"about_ca_topic_score_gemma":0.004139081,"domain_scores_codex":[0.9914421,0.001946738,0.0008166688,0.001742453,0.003587209,0.0004647879],"domain_scores_gemma":[0.9786981,0.01362742,0.001722485,0.002446949,0.002873563,0.0006314885],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001975324,0.0003102149,0.0050682,0.005336093,0.0008386518,0.0005786151,0.0004466558,0.008213363,0.04094696,0.006640869,0.8212157,0.1084293],"study_design_scores_gemma":[0.002097765,0.000644087,0.01399418,0.00127936,0.0004602419,0.001573596,0.0002090984,0.1023147,0.1181434,0.03453334,0.7236229,0.001127288],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.002600481,0.0007184405,0.3437051,0.0005630226,0.0004458976,0.000627557,0.1521191,0.4961908,0.003029661],"genre_scores_gemma":[0.02362564,0.0008253381,0.643727,0.001374092,0.0002351813,0.005961386,0.2011507,0.1169136,0.00618712],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.09442213,"threshold_uncertainty_score":0.3158735,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07772542409987128,"score_gpt":0.3109088631813704,"score_spread":0.2331834390814991,"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."}}