{"id":"W2567980438","doi":"10.1016/j.meegid.2017.01.006","title":"Limited naturally occurring escape in broadly neutralizing antibody epitopes in hepatitis C glycoprotein E2 and constrained sequence usage in acute infection","year":2017,"lang":"en","type":"article","venue":"Infection Genetics and Evolution","topic":"Hepatitis C virus research","field":"Medicine","cited_by":14,"is_retracted":false,"has_abstract":false,"ca_institutions":"Université de Montréal","funders":"National Institute on Drug Abuse; National Institute of Allergy and Infectious Diseases; Rijksinstituut voor Volksgezondheid en Milieu; National Health and Medical Research Council; National Institutes of Health; Canadian Institutes of Health Research; University of New South Wales","keywords":"Epitope; Virology; Antibody; Biology; Glycoprotein; Neutralization; Neutralizing antibody; Immunology; Conserved sequence; Virus; Peptide sequence; Genetics; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000491573,0.0001698059,0.0002712423,0.0005999774,0.0001918508,0.0001419147,0.00005069184,0.0002163974,0.00001015152],"category_scores_gemma":[0.0003188324,0.0001850775,0.00003093653,0.0003012453,0.0001889223,0.0003790188,0.00008981403,0.0004611853,0.000004234679],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003086752,"about_ca_system_score_gemma":0.0001061547,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.03792103,"about_ca_topic_score_gemma":0.03947232,"domain_scores_codex":[0.9985687,0.0001296113,0.0003781407,0.0003696239,0.0002048034,0.0003491803],"domain_scores_gemma":[0.9994034,0.00003889628,0.0001248101,0.0002277872,0.00009785539,0.0001072666],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00005810632,0.00005030728,0.902828,0.00008706943,0.00001186412,0.0000691008,0.0001632811,0.0001220014,0.06971912,0.00007266478,0.000002713135,0.02681582],"study_design_scores_gemma":[0.001740684,0.0002669528,0.9614728,0.0004712827,0.00001414373,0.00007128542,0.000009138933,0.03356553,0.001849583,0.0002006328,0.0001703736,0.0001675812],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9977992,0.0003972413,0.0003472084,0.0001965143,0.0001766861,0.0006608155,0.000009517456,0.00003170086,0.0003811186],"genre_scores_gemma":[0.9927924,0.006656289,0.0003576777,0.00004256333,0.00005996762,0.00003902032,0.00001996487,0.00001582478,0.00001632372],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06786954,"threshold_uncertainty_score":0.9780548,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03254637797392847,"score_gpt":0.3548239131363744,"score_spread":0.3222775351624459,"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."}}