{"id":"W2114539129","doi":"10.3390/genes3020291","title":"The Chlamydiales Pangenome Revisited: Structural Stability and Functional Coherence","year":2012,"lang":"en","type":"article","venue":"Genes","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"","keywords":"Biology; Genome; Phylogenetic tree; Evolutionary biology; Gene; Phylogenetics; Computational biology; Genetics","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":[0.0005116811,0.0000754045,0.00008189632,0.00002643644,0.0005027803,0.00002089958,0.00006957869,0.0000613462,0.0007340114],"category_scores_gemma":[0.0001737285,0.00004698381,0.0000266097,0.00008553532,0.0004316258,0.0001153477,0.00007365635,0.0001447936,0.0002374174],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002284749,"about_ca_system_score_gemma":0.00002655876,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003734007,"about_ca_topic_score_gemma":0.00001506457,"domain_scores_codex":[0.9992272,0.0002012224,0.0001068891,0.0001674676,0.0000318434,0.0002654007],"domain_scores_gemma":[0.9993604,0.0002305045,0.00003168977,0.0002665585,0.00009160775,0.00001919178],"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":[0.00005426256,0.00001929384,0.3974172,0.00000902865,0.00006810518,9.153473e-8,0.0001277762,4.187108e-7,0.5659989,0.001038341,0.0005144663,0.03475202],"study_design_scores_gemma":[0.0001097542,0.00002633622,0.8562411,0.000001330603,0.000008139079,0.00005158316,0.00008911053,2.328678e-7,0.05966578,0.0002518264,0.0834934,0.00006139413],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9540334,0.04427465,0.00002456722,0.0002550528,0.0005433224,0.0001705541,0.0000161858,0.00002794096,0.0006542926],"genre_scores_gemma":[0.9986637,0.0004233991,0.00002053673,0.00001740328,0.0001607388,0.00002734747,0.00002096383,0.000004874627,0.0006610063],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5063332,"threshold_uncertainty_score":0.803691,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05029866666414211,"score_gpt":0.2914132047113258,"score_spread":0.2411145380471837,"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."}}