{"id":"W2530546106","doi":"10.1038/nmicrobiol.2016.185","title":"Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes","year":2016,"lang":"en","type":"article","venue":"Nature Microbiology","topic":"Listeria monocytogenes in Food Safety","field":"Biochemistry, Genetics and Molecular Biology","cited_by":689,"is_retracted":false,"has_abstract":false,"ca_institutions":"Public Health Agency of Canada","funders":"Agence Nationale de la Recherche","keywords":"Listeria monocytogenes; Biology; Outbreak; Population; Genotyping; Genome; Lineage (genetic); Phylogenetic tree; Transmission (telecommunications); Population genomics; Virulence; Genetics; Evolutionary biology; Genomics; Virology; Genotype; Gene; Environmental health; Medicine","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004270816,0.0002480115,0.0004485225,0.00006693069,0.00005181011,0.000004432623,0.0002756035,0.001090274,0.0000263597],"category_scores_gemma":[0.0003482049,0.0001624303,0.0001083438,0.00007146657,0.000377444,0.000003725093,0.0002731673,0.0001182738,0.000005464342],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002620692,"about_ca_system_score_gemma":0.00003780743,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000129471,"about_ca_topic_score_gemma":0.00004446023,"domain_scores_codex":[0.9981996,0.0004057323,0.0004195041,0.0006214193,0.00002491613,0.0003287608],"domain_scores_gemma":[0.9989986,0.0001235178,0.0002428057,0.0004672238,0.0001050707,0.00006277708],"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":[0.0003189014,0.00002103054,0.1207834,0.00001522167,0.0000404662,7.799201e-7,0.000002600343,0.000005258462,0.8768062,0.0002400055,0.0001262795,0.001639884],"study_design_scores_gemma":[0.001965461,0.001047464,0.2518749,0.00002302131,0.00002159505,0.00009990481,0.000005560684,0.000005362383,0.595515,0.0006138904,0.1483071,0.0005208069],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9912885,0.004341056,0.002204959,0.0007561359,0.0004057582,0.0002089175,0.0007038437,0.00002080405,0.00006997153],"genre_scores_gemma":[0.9954441,0.0002034884,0.00224021,0.000697907,0.0002173415,0.00001510578,0.001079823,0.00002219088,0.00007980239],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2812912,"threshold_uncertainty_score":0.8409191,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03057300780446093,"score_gpt":0.3220010142355851,"score_spread":0.2914280064311242,"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."}}