{"id":"W2514181687","doi":"10.1371/journal.ppat.1005815","title":"Minimally Mutated HIV-1 Broadly Neutralizing Antibodies to Guide Reductionist Vaccine Design","year":2016,"lang":"en","type":"article","venue":"PLoS Pathogens","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":145,"is_retracted":false,"has_abstract":true,"ca_institutions":"SickKids Foundation; Hospital for Sick Children; University of Toronto","funders":"Basic Energy Sciences; National Institute of General Medical Sciences; Ragon Institute of MGH, MIT and Harvard; Office of Science; National Cancer Institute; International AIDS Vaccine Initiative; National Institute of Allergy and Infectious Diseases; Bill and Melinda Gates Foundation; U.S. Department of Energy","keywords":"Virology; Epitope; Antibody; HIV vaccine; Biology; Human immunodeficiency virus (HIV); Germline; AIDS Vaccines; Neutralization; Antigen; Computational biology; Mutation; Immunology; Genetics; Gene; Vaccine trial","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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0001708109,0.0002107261,0.0002705029,0.0001494834,0.0003039708,0.00002549468,0.0001964835,0.0001179899,0.000876425],"category_scores_gemma":[0.0002140247,0.0001394445,0.00008575582,0.0001589985,0.0001035457,0.0000819439,0.00008349502,0.00009671082,0.01199186],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001083839,"about_ca_system_score_gemma":0.0001037922,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003617118,"about_ca_topic_score_gemma":0.00002014668,"domain_scores_codex":[0.9983638,0.0002465426,0.0002899834,0.0004225267,0.00005681759,0.0006203203],"domain_scores_gemma":[0.9992146,0.0001456377,0.00005684794,0.0003460722,0.000143909,0.00009290905],"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":[0.0002845267,0.0002208908,0.003707892,0.000008023348,0.0003140805,0.0001042835,0.0002918415,0.000002860754,0.9553939,0.00004503749,0.03486812,0.004758517],"study_design_scores_gemma":[0.002133826,0.0007349252,0.01461703,0.0001056097,0.0000974576,0.0001341974,0.0001876645,0.000001143606,0.9435036,0.00004682443,0.03814299,0.000294746],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9878318,0.0009283765,0.001642645,0.005843054,0.0002776457,0.0007374215,0.000627073,0.0002518357,0.001860206],"genre_scores_gemma":[0.9715423,0.000167673,0.003717666,0.0001299015,0.00006874752,0.0001080459,0.0001649146,0.00003680183,0.02406396],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02220375,"threshold_uncertainty_score":0.9887774,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03221577681411796,"score_gpt":0.2761790972127249,"score_spread":0.2439633203986069,"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."}}