{"id":"W2301803317","doi":"10.1002/pro.2915","title":"Evolutionary dynamics of viral escape under antibodies stress: A biophysical model","year":2016,"lang":"en","type":"article","venue":"Protein Science","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"Advanced Research Projects Agency; Defense Advanced Research Projects Agency; FAS Division of Science, Harvard University; Harvard University","keywords":"Biology; Mutation rate; Population; Mutation; Epistasis; Viral evolution; Genetics; In silico; Evolutionary dynamics; Virus; Genetic Fitness; Genome; Virology; Gene","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":[0.0001454183,0.00009764983,0.0000879141,0.00005413298,0.00009458273,0.00001015294,0.0003393527,0.00006035424,0.000007472659],"category_scores_gemma":[0.00009015713,0.00007012653,0.00005202637,0.0001530765,0.00105097,0.00001173693,0.0002203908,0.00003288488,0.000007440065],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000349187,"about_ca_system_score_gemma":0.0002535968,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000007402015,"about_ca_topic_score_gemma":0.00002129084,"domain_scores_codex":[0.9990047,0.00001833231,0.0001507611,0.0003277319,0.0002616694,0.0002368418],"domain_scores_gemma":[0.9993744,0.000004918752,0.0000695357,0.0003126762,0.0001676886,0.00007075797],"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":[0.00001925821,0.00005795585,0.0008701603,0.000008047624,0.000004567793,1.612737e-7,0.000008302169,0.001066429,0.9773687,0.01955864,0.00003761029,0.001000184],"study_design_scores_gemma":[0.0005417597,0.0003095264,0.01191429,0.00008031935,0.000009317391,0.000005939535,0.00006446454,0.3845703,0.5826045,0.01947534,0.00007909304,0.0003450689],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8303332,0.00009213713,0.1682648,0.0003957949,0.00004163773,0.0001395579,0.00006868299,0.00001028901,0.0006538852],"genre_scores_gemma":[0.9880998,0.00003509365,0.01068295,0.00003426231,0.00003243564,0.000011895,0.00001054678,0.00000717668,0.001085812],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3947641,"threshold_uncertainty_score":0.3872344,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007669745288888644,"score_gpt":0.2528927880362019,"score_spread":0.2452230427473132,"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."}}