{"id":"W2155705049","doi":"10.1128/jcm.02249-07","title":"High-Throughput Genotyping of <i>Salmonella enterica</i> Serovar Typhi Allowing Geographical Assignment of Haplotypes and Pathotypes within an Urban District of Jakarta, Indonesia","year":2008,"lang":"en","type":"article","venue":"Journal of Clinical Microbiology","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":73,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"Max-Planck-Gesellschaft; Natural Sciences and Engineering Research Council of Canada; Wellcome Trust","keywords":"Genotyping; Salmonella typhi; Biology; Serotype; Haplotype; Salmonella enterica; Typing; Salmonella; Genotype; Pulsed-field gel electrophoresis; Molecular epidemiology; Genetics; Microbiology; Virology; Gene; Bacteria","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":[0.0003563098,0.0001292688,0.0001907551,0.0005113768,0.0002225199,0.0005229376,0.0001681035,0.0001573069,0.0004804589],"category_scores_gemma":[0.0005874551,0.0001342124,0.000142814,0.0004668817,0.0001255643,0.0001517603,0.0002346107,0.0001854344,0.0002153507],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001962958,"about_ca_system_score_gemma":0.0002377345,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004223285,"about_ca_topic_score_gemma":0.009396619,"domain_scores_codex":[0.9997061,0.00009809936,0.00002259373,0.0000693269,0.00007081571,0.00003301597],"domain_scores_gemma":[0.9997248,0.00008982771,0.00006955522,0.00003728928,0.00004314224,0.00003531077],"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":[0.0004328524,0.0003095091,0.3956238,0.0001479789,0.0001561756,0.0003254849,0.0005875934,0.002966596,0.5356463,0.0002365194,0.0009969624,0.06257026],"study_design_scores_gemma":[0.00001603215,0.0001744255,0.9355214,0.00001706986,0.0000735823,0.0005371265,0.0002855684,0.01036875,0.05072094,0.0001342183,0.002130522,0.00002033579],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9914377,0.000127216,0.006012267,0.00004250105,0.000008833417,0.00006409131,0.001380186,0.00008156151,0.0008456503],"genre_scores_gemma":[0.9822478,0.0001298803,0.01498949,0.00003107265,0.00000581637,0.00005890274,0.00173525,0.00001072747,0.0007910516],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004223285,"threshold_uncertainty_score":0.0083974,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04797043881014242,"score_gpt":0.2843193473115144,"score_spread":0.236348908501372,"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."}}