{"id":"W2989492122","doi":"10.3390/v11111012","title":"HIV-1 Envelope Glycoprotein Amino Acids Signatures Associated with Clade B Transmitted/Founder and Recent Viruses","year":2019,"lang":"en","type":"article","venue":"Viruses","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"Centre Hospitalier de l’Université de Montréal; Institut National de Santé Publique du Québec; Université de Montréal","funders":"Islamic Development Bank; Fonds de Recherche du Québec - Santé; Université du Québec en Outaouais; Institut National de Santé Publique du Québec; Université de Montréal; Université de Sherbrooke","keywords":"Glycoprotein; Clade; Virology; Human immunodeficiency virus (HIV); Biology; Founder effect; Viral envelope; Amino acid; Genetics; Phylogenetics; Gene; Haplotype; Allele","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003797071,0.0002510017,0.0002446495,0.0006096718,0.0002616487,0.0003780776,0.0001681035,0.0003960017,0.001592441],"category_scores_gemma":[0.00079572,0.00007585939,0.0002601304,0.0003295025,0.0002879839,0.000271915,0.0002679525,0.0004785214,0.0001812988],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001506157,"about_ca_system_score_gemma":0.0001167745,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004169806,"about_ca_topic_score_gemma":0.0003867425,"domain_scores_codex":[0.9997322,0.00006024083,0.00002964121,0.00007942271,0.00006491894,0.00003345615],"domain_scores_gemma":[0.998645,0.0002923893,0.0007094319,0.00006850866,0.00009271457,0.0001919448],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.002348874,0.0001162229,0.8235608,0.000158365,0.0001936836,0.001037696,0.000330907,0.0002203051,0.1543663,0.0001237289,0.0002057558,0.01733737],"study_design_scores_gemma":[0.00003308282,0.0007052908,0.980523,0.00004267424,0.0001399372,0.007701272,0.000300698,0.0007164227,0.008787599,0.0001922467,0.0008445363,0.00001314637],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9991937,0.0004248059,0.0001538251,0.00001132753,0.00000254693,0.000003134657,0.00004914183,0.000003173974,0.0001584494],"genre_scores_gemma":[0.9994457,0.0001166961,0.0002218061,0.00001348998,0.00000630229,0.000002078982,0.0001105159,0.00000281793,0.00008056975],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001592441,"threshold_uncertainty_score":0.005327225,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02146174127464493,"score_gpt":0.2568359173864108,"score_spread":0.2353741761117658,"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."}}