{"id":"W1134616656","doi":"10.1371/journal.pone.0134099","title":"Environmental Interactions and Epistasis Are Revealed in the Proteomic Responses to Complex Stimuli","year":2015,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo","funders":"National Institute of General Medical Sciences; School of Medicine, Vanderbilt University; National Institutes of Health; Vanderbilt University","keywords":"Epistasis; Proteome; Stimulus (psychology); Biology; Transcriptome; Computational biology; Genetics; Gene; Gene expression; Cognitive psychology; Psychology","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":[0.0004238737,0.0003833548,0.0004168218,0.0006146008,0.0003016237,0.0007367128,0.000201148,0.0002727073,0.0006436157],"category_scores_gemma":[0.001208923,0.0002398096,0.0004337351,0.0004707847,0.0005575571,0.0007041677,0.0007182269,0.0004300175,0.0001223155],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003207753,"about_ca_system_score_gemma":0.0002745737,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006784319,"about_ca_topic_score_gemma":0.0009673057,"domain_scores_codex":[0.999559,0.0001232929,0.00002262471,0.0001257286,0.0001122691,0.00005707733],"domain_scores_gemma":[0.9995111,0.0001936954,0.00013507,0.00006836552,0.00004706538,0.00004465207],"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":[0.0002712226,0.00006595858,0.01470886,0.0001706843,0.0001763096,0.0005067202,0.0002412195,0.01850009,0.9365975,0.01096525,0.0002563834,0.01753985],"study_design_scores_gemma":[0.00004940132,0.0004825402,0.3796889,0.00003278824,0.0002902674,0.001361969,0.0006674562,0.2695603,0.2632575,0.07493324,0.009460408,0.0002152253],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9430546,0.0006002524,0.05235827,0.0002643141,0.00001875045,0.0000251342,0.0002977483,0.0002909539,0.003089965],"genre_scores_gemma":[0.9939122,0.0002204499,0.00539302,0.00006169063,0.000008565382,0.0000168524,0.00009786848,0.00002487049,0.000264571],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0007367128,"threshold_uncertainty_score":0.002327442,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07225405157851937,"score_gpt":0.2646239164278972,"score_spread":0.1923698648493778,"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."}}