{"id":"W4375956017","doi":"10.1093/molbev/msad106","title":"CAGEE: Computational Analysis of Gene Expression Evolution","year":2023,"lang":"en","type":"article","venue":"Molecular Biology and Evolution","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"National Science Foundation","keywords":"Biology; Robustness (evolution); Gene; Evolutionary biology; Phylogenetic tree; Genome; Computational biology; Gene expression; Transcriptome; Genetics; Gene expression profiling; Phylogenetics","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":[0.002507362,0.001117241,0.001539047,0.001578378,0.00084804,0.001275576,0.002462996,0.001123881,0.007142004],"category_scores_gemma":[0.00813449,0.0007584268,0.002576184,0.001579226,0.0007474661,0.001033556,0.001444703,0.002148575,0.001447723],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007739058,"about_ca_system_score_gemma":0.001945266,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00694868,"about_ca_topic_score_gemma":0.009946387,"domain_scores_codex":[0.9993132,0.0002338536,0.00004882819,0.0002046078,0.0001511078,0.00004841431],"domain_scores_gemma":[0.9957069,0.003591627,0.0001267509,0.0002705354,0.0002072505,0.00009695202],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0009361237,0.0003382527,0.02619089,0.001535157,0.002212459,0.0006149862,0.0007514841,0.6586746,0.01886904,0.0440996,0.07899705,0.1667804],"study_design_scores_gemma":[0.00008191741,0.0000268785,0.001763588,0.00001572244,0.00004843924,0.00007005691,0.000028234,0.9778264,0.001799804,0.01085643,0.007454228,0.00002835824],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.05595701,0.0005699309,0.8771605,0.0007365103,0.0002493153,0.0001873388,0.01664904,0.04544948,0.003040781],"genre_scores_gemma":[0.1839417,0.0004470129,0.7756824,0.000683192,0.0001510588,0.00222768,0.02591302,0.007976074,0.002977809],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.007142004,"threshold_uncertainty_score":0.0238924,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007140811726156031,"score_gpt":0.2554499503331256,"score_spread":0.2483091386069695,"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."}}