{"id":"W1978075951","doi":"10.1371/journal.ppat.1004285","title":"Cryptococcus gattii VGIII Isolates Causing Infections in HIV/AIDS Patients in Southern California: Identification of the Local Environmental Source as Arboreal","year":2014,"lang":"en","type":"article","venue":"PLoS Pathogens","topic":"Fungal Infections and Studies","field":"Medicine","cited_by":92,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Institute of General Medical Sciences; Kaiser Permanente; Nova Southeastern University; National Institute of Allergy and Infectious Diseases; Johns Hopkins University; Centers for Disease Control and Prevention; North Carolina State University; National Institutes of Health","keywords":"Cryptococcus gattii; Outbreak; Biology; Multilocus sequence typing; Virulence; Isolation (microbiology); Cryptococcosis; Virology; Microbiology; Genotype; Genetics","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001664833,0.0001335086,0.0002309498,0.0001464389,0.0001272055,0.000008810411,0.00004348564,0.00008185969,0.00004055035],"category_scores_gemma":[0.0001678584,0.0001011363,0.00008995365,0.0002453843,0.0001484169,0.00003506048,0.00006673461,0.0002123922,0.00009506671],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001518486,"about_ca_system_score_gemma":0.00002071006,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003205378,"about_ca_topic_score_gemma":0.0003660546,"domain_scores_codex":[0.9989131,0.0001057289,0.0004039208,0.000209326,0.0001738131,0.0001941108],"domain_scores_gemma":[0.9994853,0.00007498528,0.0001213986,0.0002413557,0.00003179929,0.00004521836],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00002217681,0.0007759008,0.9557955,0.00003019942,0.00002898808,0.000001169129,0.001476774,0.0004554866,0.04036447,0.00002353489,0.00001345373,0.001012334],"study_design_scores_gemma":[0.001932601,0.0003844535,0.975365,0.0002202856,0.0001735323,0.00001361744,0.002631899,0.01061307,0.007778386,0.0002066473,0.0004566835,0.0002238307],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9979326,0.00002685167,0.0009856991,0.00008064646,0.00007081262,0.0004187855,0.0001577608,0.00001980554,0.0003071145],"genre_scores_gemma":[0.9996148,0.00001320786,0.00003883867,0.00004964931,0.0000436444,0.00005563207,0.00003480611,0.00001987897,0.0001295576],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03258609,"threshold_uncertainty_score":0.4124217,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007001030033955019,"score_gpt":0.2117138000714538,"score_spread":0.2047127700374988,"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."}}