{"id":"W3028965142","doi":"10.1080/15548627.2020.1761659","title":"Using Reactome to build an autophagy mechanism knowledgebase","year":2020,"lang":"en","type":"article","venue":"Autophagy","topic":"Autophagy in Disease and Therapy","field":"Medicine","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Ontario Institute for Cancer Research","funders":"National Human Genome Research Institute; European Bioinformatics Institute; Foundation for the National Institutes of Health","keywords":"Autophagy; Biology; Computational biology; PI3K/AKT/mTOR pathway; Cell biology; Sequestosome 1; Signal transduction; Genetics","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":["metaepi_narrow","insufficient_payload"],"consensus_categories":["insufficient_payload"],"category_scores_codex":[0.0001763138,0.0003832148,0.00059522,0.0001775641,0.0001557765,0.00005173516,0.0003055925,0.0001975482,0.001721326],"category_scores_gemma":[0.0001458121,0.0003646157,0.0002155731,0.0006178711,0.00005317588,0.0002642404,0.0001232888,0.0003120574,0.001057671],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001261725,"about_ca_system_score_gemma":0.0003315445,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005800435,"about_ca_topic_score_gemma":0.000002865251,"domain_scores_codex":[0.9976705,0.00009569545,0.0004450271,0.0007503398,0.000436421,0.0006019653],"domain_scores_gemma":[0.9975449,0.00004307111,0.0001022563,0.0007043685,0.0001526528,0.001452735],"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":[0.00096388,0.0009224829,0.0002279471,0.0001829464,0.0003163506,0.002045612,0.003384252,0.00008615897,0.9511945,0.02066168,0.001891484,0.01812266],"study_design_scores_gemma":[0.00519897,0.002864883,0.008529132,0.0001608245,0.0004687944,0.0002568675,0.0002948112,0.02677745,0.9125937,0.003966073,0.03784605,0.001042439],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9870887,0.0006438468,0.006181094,0.001573527,0.0004442901,0.0007517645,0.00003267028,0.0006927837,0.002591271],"genre_scores_gemma":[0.973165,0.00002198092,0.007528497,0.01735293,0.001072757,0.00003509232,0.0000432168,0.0001138047,0.0006666858],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03860084,"threshold_uncertainty_score":0.9998806,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09045085359650998,"score_gpt":0.3660516334232336,"score_spread":0.2756007798267236,"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."}}