{"id":"W1550333348","doi":"10.1186/s12977-015-0170-8","title":"Functional bottlenecks for generation of HIV-1 intersubtype Env recombinants","year":2015,"lang":"en","type":"article","venue":"Retrovirology","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"National Institute of Allergy and Infectious Diseases; Fogarty International Center; National Institutes of Health","keywords":"Biology; Recombination; Virology; Viral evolution; Genetics; Integrase; Gp41; Viral replication; Virus; Gene; Human immunodeficiency virus (HIV); Computational biology; Genome; Epitope; Antibody","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001539025,0.0005250881,0.0004473615,0.0004442023,0.0004267915,0.0009662727,0.0009333137,0.0005761344,0.00367953],"category_scores_gemma":[0.002577607,0.0002557366,0.0004205692,0.0002655149,0.0003309661,0.0006684258,0.0006363947,0.001219753,0.0008499957],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008892154,"about_ca_system_score_gemma":0.0004304457,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005971575,"about_ca_topic_score_gemma":0.0003408548,"domain_scores_codex":[0.9994192,0.0001339456,0.00006729712,0.0001151519,0.0001608585,0.0001035345],"domain_scores_gemma":[0.99861,0.0006766911,0.0002588897,0.0001560102,0.0001568991,0.0001413749],"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":[0.0003116996,0.0003078913,0.006608634,0.0001793894,0.00004685628,0.0003035409,0.0001409972,0.002264252,0.9787891,0.002791926,0.0002882805,0.00796746],"study_design_scores_gemma":[0.00008653295,0.001326438,0.0149731,0.00005111446,0.0001641069,0.002063898,0.0002644512,0.03230393,0.9405732,0.002279396,0.005871012,0.00004279919],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9834055,0.0005255946,0.01319764,0.0001407143,0.00001874431,0.0001096916,0.0003568418,0.0001817637,0.002063521],"genre_scores_gemma":[0.9929858,0.0001902267,0.005229558,0.00005025195,0.000007763021,0.0000942499,0.0006725265,0.00008870474,0.0006808422],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00367953,"threshold_uncertainty_score":0.01230931,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08223533225613862,"score_gpt":0.2875610783833781,"score_spread":0.2053257461272395,"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."}}