{"id":"W2112507995","doi":"10.1128/jvi.01086-10","title":"Early Selection in Gag by Protective HLA Alleles Contributes to Reduced HIV-1 Replication Capacity That May Be Largely Compensated for in Chronic Infection","year":2010,"lang":"en","type":"article","venue":"Journal of Virology","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":125,"is_retracted":false,"has_abstract":true,"ca_institutions":"AIDS Vancouver; Simon Fraser University","funders":"Medical Research Council; Center for AIDS Research, University of Washington; Canadian Institutes of Health Research; Harvard University Center for AIDS Research; National Institutes of Health; Harvard University; National Institute of Allergy and Infectious Diseases; National Health and Medical Research Council; Natural Sciences and Engineering Research Council of Canada; Bill and Melinda Gates Foundation; Howard Hughes Medical Institute","keywords":"Biology; Allele; Viral replication; CD8; Human leukocyte antigen; Virology; Pathogenesis; Virus; Chronic infection; Mutation; Gene; Immunology; Genetics; Immune system; Antigen","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":[0.0008578021,0.0001173538,0.0003193472,0.0003687944,0.00008991008,0.00001131058,0.0001016294,0.0003283176,0.00005620336],"category_scores_gemma":[0.0004187537,0.0001002563,0.00006550657,0.0001875039,0.00009863165,0.0001091745,0.00002033742,0.0007627647,0.0000381365],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003656453,"about_ca_system_score_gemma":0.000153377,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007393735,"about_ca_topic_score_gemma":0.004435836,"domain_scores_codex":[0.9986877,0.0003610201,0.0003521268,0.0002215353,0.00003592403,0.0003416988],"domain_scores_gemma":[0.9992397,0.0001951602,0.000236274,0.0001130884,0.0001814611,0.00003426919],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.001516906,0.0002216469,0.04715228,0.000007204574,0.0001262665,0.000002736364,0.0002043925,0.00001977896,0.9476296,0.00009668918,0.001827651,0.00119482],"study_design_scores_gemma":[0.004877586,0.002415268,0.4952931,0.00001765138,0.00001927983,0.0001200585,0.0000190044,0.00001634386,0.4827036,0.000291355,0.01414315,0.00008356904],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9947363,0.0001873051,0.0009856771,0.002934968,0.0001660193,0.0009009301,0.00005378403,0.00001146055,0.00002355263],"genre_scores_gemma":[0.9994147,0.00003904594,0.0001056197,0.00007652655,0.00003343113,0.000168077,0.0000614142,0.000009555318,0.00009166489],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.464926,"threshold_uncertainty_score":0.4088332,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0233623512502193,"score_gpt":0.29703799502224,"score_spread":0.2736756437720207,"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."}}