{"id":"W1997275472","doi":"10.1093/molbev/msh256","title":"Phylogenetic Analysis of the ING Family of PHD Finger Proteins","year":2004,"lang":"en","type":"article","venue":"Molecular Biology and Evolution","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":189,"is_retracted":false,"has_abstract":true,"ca_institutions":"South Health Campus; University of Victoria; University of Calgary","funders":"Natural Sciences and Engineering Research Council of Canada; University of Calgary; Genome Prairie; Fondation pour la Recherche Médicale; Canadian Institutes of Health Research; Genome Canada; Michael Smith Health Research BC","keywords":"Biology; Gene; Genetics; Gene family; Conserved sequence; Phylogenetic tree; Alternative splicing; Functional divergence; Protein family; Histone; Phylogenetics; Chromatin remodeling; Genome; Gene isoform; Peptide sequence","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":[0.0001493339,0.00009182422,0.0001595561,0.00007640365,0.00005428103,0.000002069034,0.0001177359,0.0001659815,0.00000277228],"category_scores_gemma":[0.0000604618,0.00007035412,0.0001332749,0.0002722892,0.000213759,0.000001264048,0.000095389,0.00005697051,4.667624e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009151904,"about_ca_system_score_gemma":0.00005400792,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00008554497,"about_ca_topic_score_gemma":0.000029329,"domain_scores_codex":[0.9993426,0.00009183025,0.0001778101,0.0002020811,0.00005425012,0.0001314512],"domain_scores_gemma":[0.9995446,0.00000418777,0.0001180942,0.0002484502,0.0000607977,0.00002385525],"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":[0.00002481721,0.00003034543,0.02498993,0.0000139012,0.0002232585,2.444489e-7,0.00003690649,0.0006571739,0.9715303,0.002173785,0.000002056835,0.0003172646],"study_design_scores_gemma":[0.0002793372,0.000206222,0.1496838,0.00001374392,0.0001806629,0.000002284129,0.00002341858,0.00005200736,0.8475046,0.001856237,0.0001141012,0.0000837042],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9708475,0.002524771,0.02610426,0.00006015112,0.00003899854,0.000172955,0.00002585325,0.000003275706,0.0002222617],"genre_scores_gemma":[0.9989843,0.00004602793,0.0008008848,0.00008556921,0.0000177183,0.00001059543,0.00003620131,0.000005795099,0.00001292645],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1246938,"threshold_uncertainty_score":0.2868958,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009363451141926245,"score_gpt":0.2392579269915864,"score_spread":0.2298944758496601,"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."}}