{"id":"W1983528535","doi":"10.1371/journal.pgen.1001162","title":"Pervasive Cryptic Epistasis in Molecular Evolution","year":2010,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":188,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"National Institute of General Medical Sciences; National Institutes of Health","keywords":"Biology; Epistasis; Genetics; Mutant; Mutation; Phylogenetic tree; Molecular evolution; Escherichia coli; Phylogenetics; Wild type; Gene; Evolutionary biology","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008850658,0.0001712154,0.0001463477,0.00005872801,0.00005641656,0.00001806703,0.0002101252,0.0001634384,0.00002129135],"category_scores_gemma":[0.00008971182,0.0001822868,0.0000751215,0.0001012013,0.0000947664,4.567874e-7,0.000142981,0.0001453301,0.00002389907],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001503603,"about_ca_system_score_gemma":0.00007329691,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009155602,"about_ca_topic_score_gemma":0.00017621,"domain_scores_codex":[0.9989822,0.00003376313,0.0002092995,0.0003513547,0.0001272114,0.0002961623],"domain_scores_gemma":[0.9993346,0.00001052495,0.00005474788,0.0004221283,0.00009909111,0.00007888128],"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":[0.00001280506,0.00008314809,0.0263284,0.00001189727,0.0000428044,0.000005418061,0.00005967162,0.0001976504,0.9724326,0.0003215612,0.00008150717,0.0004225983],"study_design_scores_gemma":[0.0005373662,0.0002156196,0.02899511,0.000007788667,0.00004100933,0.00001075954,0.00009764078,0.0006262074,0.9620649,0.001491654,0.005559934,0.0003520418],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9960885,0.00186556,0.0002298149,0.0001341615,0.000204203,0.0002042739,0.00001704939,0.000004356073,0.001252068],"genre_scores_gemma":[0.9957026,0.0002096963,0.003603758,0.000148223,0.0001674252,0.00003705198,0.00001899045,0.00002997566,0.00008223703],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01036767,"threshold_uncertainty_score":0.7433441,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008080104311572196,"score_gpt":0.2177011929342623,"score_spread":0.2096210886226901,"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."}}