{"id":"W4416308796","doi":"10.1093/nar/gkaf1223","title":"The Reactome Knowledgebase 2026","year":2025,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Ontario Institute for Cancer Research","funders":"National Institutes of Health; European Bioinformatics Institute","keywords":"Workflow; Visualization; Modular design; Data visualization; User interface; Interface (matter); Data integration; The Internet","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":[0.001370585,0.00009488082,0.00008313945,0.00006550567,0.0005317389,0.0001170266,0.0005498811,0.000161565,0.00003704916],"category_scores_gemma":[0.0002249077,0.00006635594,0.00006730186,0.0003021492,0.0002950684,0.000002739176,0.0004907816,0.0003547334,0.0001902529],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003093514,"about_ca_system_score_gemma":0.0001981479,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001090678,"about_ca_topic_score_gemma":0.00004057662,"domain_scores_codex":[0.9988106,0.0001141998,0.0001927713,0.0002096847,0.0002066566,0.0004661266],"domain_scores_gemma":[0.9989339,0.00008347071,0.00002416095,0.0006504486,0.0002289798,0.00007902126],"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":[0.0002324298,0.00007778512,0.001011797,0.00004403748,0.0001290376,0.000003810463,0.0001138678,0.000009970991,0.07192122,0.01657218,0.6957219,0.214162],"study_design_scores_gemma":[0.0002905489,0.00009859884,0.001048434,0.00001619047,0.000003703236,0.000002398901,0.0002029961,0.0006996558,0.006669277,0.002646299,0.9882346,0.00008723891],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"other","genre_gemma":"empirical","genre_scores_codex":[0.4252807,0.009270603,0.002384709,0.00630601,0.0009954196,0.0008702861,0.00002162077,0.00004252613,0.5548282],"genre_scores_gemma":[0.9537405,0.001092055,0.0002404557,0.0002843807,0.0003176427,0.00004243994,0.00002994951,0.00001637603,0.0442362],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.5284598,"threshold_uncertainty_score":0.4089759,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02188175949250938,"score_gpt":0.3369826534496376,"score_spread":0.3151008939571282,"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."}}