{"id":"W2895946932","doi":"10.1021/acs.jpcb.8b07680","title":"Prediction of Misfolding-Specific Epitopes in SOD1 Using Collective Coordinates","year":2018,"lang":"en","type":"article","venue":"The Journal of Physical Chemistry B","topic":"Machine Learning in Bioinformatics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":33,"is_retracted":false,"has_abstract":true,"ca_institutions":"Genome British Columbia; University of British Columbia","funders":"Alberta Prion Research Institute; Canadian Institutes of Health Research","keywords":"Epitope; SOD1; Protein folding; Computational biology; Computer science; Biology; Cell biology; Immunology; Genetics","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":[0.0002396167,0.00029097,0.0003160775,0.0002522716,0.000189792,0.0002634249,0.0002495457,0.0002859091,0.000227596],"category_scores_gemma":[0.0005752071,0.0001519161,0.0002142304,0.0001359064,0.0001886688,0.0002598897,0.000232556,0.0002523241,0.00005463891],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000250078,"about_ca_system_score_gemma":0.0003236237,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001270134,"about_ca_topic_score_gemma":0.001613223,"domain_scores_codex":[0.999956,0.00001205854,0.000002031815,0.00001191565,0.00001257302,0.000005527251],"domain_scores_gemma":[0.9997614,0.00006443233,0.00006707908,0.000027641,0.00003632284,0.0000430902],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0001175804,0.00004937904,0.01718806,0.00003136572,0.00003777054,0.0001607121,0.00009982722,0.9240764,0.0458365,0.001586474,0.000225218,0.01059083],"study_design_scores_gemma":[0.000007891693,0.0000358664,0.001532109,0.000001299959,0.000003890617,0.00001299729,0.000008118956,0.9941983,0.00361408,0.0004936313,0.00008783545,0.000004032789],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9346302,0.0000980223,0.06467583,0.00005926124,0.000007332341,0.000007847795,0.00003628624,0.0001981178,0.0002870857],"genre_scores_gemma":[0.9803739,0.00005214984,0.0192921,0.000006340882,0.000003630914,0.00001440436,0.00006799274,0.00002643471,0.0001631683],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001270134,"threshold_uncertainty_score":0.002525449,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01563227595754153,"score_gpt":0.2605335700930044,"score_spread":0.2449012941354629,"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."}}