{"id":"W2134459098","doi":"10.1093/bioinformatics/btt574","title":"PLIDA: cross-platform gene expression normalization using perturbed topic models","year":2013,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Gene expression and cancer classification","field":"Biochemistry, Genetics and Molecular Biology","cited_by":23,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Normalization (sociology); Computer science; Data mining; Multiplicative function; Database normalization; Machine learning; MATLAB; Artificial intelligence; Pattern recognition (psychology); Programming language; Mathematics","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":[0.00007398752,0.0001445749,0.0001018546,0.00005824463,0.0001468131,0.0001144932,0.0001773432,0.0001824462,0.00007041459],"category_scores_gemma":[0.00002269738,0.0001218393,0.0000594309,0.00009182587,0.00003800715,0.00006859027,0.0001012441,0.00005621126,0.00003929146],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000296127,"about_ca_system_score_gemma":0.00006511102,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001258394,"about_ca_topic_score_gemma":8.162337e-7,"domain_scores_codex":[0.9991098,0.00001161688,0.0003379942,0.0001531515,0.0001766235,0.0002107906],"domain_scores_gemma":[0.9992043,0.000003586015,0.0001609052,0.0003755186,0.0001616174,0.00009402575],"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":[0.00001740852,0.00002925027,0.0009457632,0.00004744473,0.0000112143,1.354135e-7,0.0002840554,0.004980278,0.9860941,0.0001407152,0.003772013,0.003677674],"study_design_scores_gemma":[0.0005888404,0.00006200184,0.001410116,0.00002933014,0.000009606581,0.00001212056,0.0002113105,0.2412061,0.7487202,0.0003493196,0.007113465,0.0002876678],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7656616,0.0001837249,0.2291759,0.00003336288,0.0002550522,0.0003213277,0.000008243323,0.00003185685,0.004328936],"genre_scores_gemma":[0.9702059,0.0001228727,0.02760307,0.0003799563,0.0001857108,0.00004132536,0.0002519184,0.00001917011,0.0011901],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2373739,"threshold_uncertainty_score":0.4968464,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03397369946140757,"score_gpt":0.2751642719546302,"score_spread":0.2411905724932226,"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."}}