{"id":"W2903248410","doi":"10.1093/gbe/evy251","title":"<i>Nephromyces</i>Encodes a Urate Metabolism Pathway and Predicted Peroxisomes, Demonstrating That These Are Not Ancient Losses of Apicomplexans","year":2018,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Parasitic Infections and Diagnostics","field":"Immunology and Microbiology","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University","funders":"National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; National Science Foundation","keywords":"Biology; Peroxisome; In silico; Transcriptome; Apicomplexa; Lineage (genetic); Genetics; Purine metabolism; Phylogenetics; Purine; Evolutionary biology; Gene; Computational biology; Biochemistry; Enzyme; Gene expression; Plasmodium falciparum","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00007653419,0.0003208707,0.0002411309,0.0002948064,0.0003697197,0.0004943398,0.0001751619,0.0002255376,0.00192213],"category_scores_gemma":[0.0002302508,0.000131145,0.0003855818,0.0003728194,0.0002064943,0.0003901028,0.0002854053,0.0003444469,0.0007275306],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002360505,"about_ca_system_score_gemma":0.0003174458,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001065477,"about_ca_topic_score_gemma":0.001746616,"domain_scores_codex":[0.9998959,0.000006760063,0.000007721788,0.00004083653,0.00003156816,0.00001712399],"domain_scores_gemma":[0.9997854,0.00003496934,0.00008949529,0.00003459171,0.00001924586,0.00003643849],"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":[0.0001241155,0.00001356274,0.009503514,0.0001373977,0.00002827106,0.0003487216,0.00005919059,0.0001642497,0.9815911,0.0003146271,0.0003809734,0.007334224],"study_design_scores_gemma":[0.00001559666,0.0001443412,0.4155324,0.00006611398,0.0001084145,0.007277148,0.0001666414,0.002886301,0.5346512,0.0009303132,0.03816484,0.00005658858],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9656063,0.001213026,0.0123523,0.0001999102,0.00005429561,0.00004323353,0.01468762,0.0006780563,0.005165156],"genre_scores_gemma":[0.9414702,0.0010391,0.01924968,0.0002429879,0.00003619845,0.00005500603,0.03309066,0.0002506773,0.004565423],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00192213,"threshold_uncertainty_score":0.006430149,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01867533129012403,"score_gpt":0.2418082496440338,"score_spread":0.2231329183539097,"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."}}