{"id":"W1995230120","doi":"10.1371/journal.pgen.1000785","title":"The Bifidobacterium dentium Bd1 Genome Sequence Reflects Its Genetic Adaptation to the Human Oral Cavity","year":2009,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Oral microbiology and periodontitis research","field":"Dentistry","cited_by":178,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"University College Cork; Science Foundation Ireland","keywords":"Biology; Genome; Genetics; Bifidobacterium; Whole genome sequencing; Bifidobacterium bifidum; Gene; Bacteria; Lactobacillus","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":[0.0002077838,0.0006838734,0.0006962937,0.001101044,0.000766459,0.0008217009,0.0002569489,0.0006992618,0.002005701],"category_scores_gemma":[0.0004743469,0.0002709476,0.0005545669,0.002243436,0.0002022677,0.0002115319,0.0005212516,0.0009460096,0.00117708],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004477499,"about_ca_system_score_gemma":0.000632809,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008554686,"about_ca_topic_score_gemma":0.008003161,"domain_scores_codex":[0.9997589,0.00002134128,0.00001447971,0.00008688373,0.00006800475,0.00005040443],"domain_scores_gemma":[0.9997618,0.00003049147,0.00005979307,0.00001786059,0.00007239918,0.00005770404],"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":[0.001196281,0.0001287306,0.03474679,0.001088598,0.0001031527,0.0006393292,0.0004016019,0.0005980908,0.9006909,0.0003307273,0.004382646,0.05569313],"study_design_scores_gemma":[0.00009912239,0.0007310993,0.7495837,0.0003862345,0.0005899261,0.004463883,0.001071824,0.003773362,0.114937,0.0005143626,0.1237203,0.0001292315],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9156258,0.01060792,0.007111405,0.001077505,0.0002689244,0.0001489911,0.05795972,0.0004526824,0.006747035],"genre_scores_gemma":[0.8140412,0.008360313,0.02585442,0.000512657,0.0001180939,0.0001570986,0.1446353,0.0001745968,0.006146404],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.008554686,"threshold_uncertainty_score":0.01700979,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09676755671222885,"score_gpt":0.3532339249932673,"score_spread":0.2564663682810385,"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."}}