{"id":"W2273220476","doi":"10.1128/mbio.01516-15","title":"Relative Resistance of HLA-B to Downregulation by Naturally Occurring HIV-1 Nef Sequences","year":2016,"lang":"en","type":"article","venue":"mBio","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":23,"is_retracted":false,"has_abstract":true,"ca_institutions":"AIDS Vancouver; Simon Fraser University","funders":"National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; National Institutes of Health; Canada Research Chairs; Ministry of Education, Culture, Sports, Science and Technology; University of Toronto; Michael Smith Health Research BC; University of Oxford; George Washington University","keywords":"Downregulation and upregulation; Biology; Human leukocyte antigen; Mutagenesis; clone (Java method); Effector; Virology; Mutant; Molecular biology; Cell biology; Genetics; Gene; 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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00009880192,0.0000770628,0.0001168075,0.00004804287,0.00007251416,0.000004167649,0.0001103479,0.00008103571,0.0003157944],"category_scores_gemma":[0.000087621,0.00004724245,0.00003471157,0.00008554962,0.0001190423,0.00009779355,0.00003476755,0.00006308071,0.001275851],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006136023,"about_ca_system_score_gemma":0.00003139236,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003407016,"about_ca_topic_score_gemma":0.00007228277,"domain_scores_codex":[0.9993641,0.00008186996,0.0001342638,0.0001755338,0.00003705839,0.0002072011],"domain_scores_gemma":[0.9995957,0.0001209174,0.00005107982,0.0001490613,0.00005941289,0.00002385135],"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":[0.0001718529,0.00003373409,0.005833541,0.000006084673,0.00006806275,0.000002709185,0.0002707234,2.709616e-7,0.9665272,0.001543569,0.02299571,0.002546603],"study_design_scores_gemma":[0.001352452,0.0002408147,0.03720989,0.0001613651,0.00001326513,0.00000422613,0.00007212799,9.277157e-8,0.8414043,0.00104043,0.1183489,0.000152125],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9873242,0.002594121,0.0008592824,0.002546136,0.000127821,0.0002918729,0.0005274704,0.00004310103,0.005685982],"genre_scores_gemma":[0.9809542,0.00001708799,0.0004071626,0.00003705921,0.000006858254,0.00001506898,0.00005870556,0.000004238599,0.01849957],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1251228,"threshold_uncertainty_score":0.9995018,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009860170867656887,"score_gpt":0.254185086709965,"score_spread":0.2443249158423081,"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."}}