{"id":"W2116443392","doi":"10.1093/nar/gkt533","title":"GeneMANIA Prediction Server 2013 Update","year":2013,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":403,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences","keywords":"Biology; Function (biology); Set (abstract data type); Model organism; Caenorhabditis elegans; Computer science; Genomics; Gene; Gene nomenclature; Computational biology; Genome; Genetics; Ecology; Taxonomy (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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0005889994,0.0001190974,0.00009930585,0.00007099018,0.0001972056,0.0001133402,0.0003511728,0.0002551797,0.0009073191],"category_scores_gemma":[0.00002586656,0.0001055643,0.00006128533,0.0001488164,0.0001309448,0.00001373847,0.0003403063,0.0003064408,0.002098307],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002503712,"about_ca_system_score_gemma":0.00005745758,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009812459,"about_ca_topic_score_gemma":0.00002583744,"domain_scores_codex":[0.9986008,0.00008080162,0.0002211908,0.0002679199,0.0003305929,0.0004987159],"domain_scores_gemma":[0.9989842,0.000008878021,0.00003525906,0.0005349024,0.0002756119,0.0001611088],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00004535761,0.00007525425,0.002909331,0.00004366885,0.00008902604,0.000002037276,0.0001105408,0.0001533931,0.1244921,0.0007172321,0.8465848,0.02477725],"study_design_scores_gemma":[0.001129204,0.0006673897,0.03022613,0.00002923488,0.00001230874,0.00003350421,0.0003441906,0.0186523,0.01519082,0.003850518,0.9294068,0.0004576644],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.984198,0.0005767606,0.001235171,0.001166611,0.0002109543,0.0005027992,0.00001982356,0.00002658768,0.01206331],"genre_scores_gemma":[0.9925181,0.000690799,0.001199147,0.0003442767,0.0005982997,0.00007186295,0.0001588735,0.00003091268,0.004387783],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1093013,"threshold_uncertainty_score":0.9986787,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01969883482439367,"score_gpt":0.2807602535965554,"score_spread":0.2610614187721617,"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."}}