{"id":"W2177866950","doi":"10.1186/s12864-015-2190-0","title":"Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome","year":2015,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":71,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; Institut National de la Recherche Agronomique; Centre National de la Recherche Scientifique; Centre de Coopération Internationale en Recherche Agronomique pour le Développement; Université de Toulouse; Institut de Recherche pour le Développement; Agence Nationale de la Recherche; Laboratoire d'Excellence TULIP","keywords":"Biology; Xanthomonas campestris; Genomics; DNA microarray; Comparative genomics; Computational biology; Transcriptome; Genetics; Genome; Bacteria; Gene; Gene expression","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002778484,0.0001502049,0.0003436657,0.000009388111,0.00007436059,0.0000136781,0.0002722155,0.00008999838,0.00001428514],"category_scores_gemma":[0.00005810899,0.00005740489,0.00007259422,0.0001196431,0.0002880307,0.00003700476,0.0001090853,0.00008082738,0.000002938749],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003440954,"about_ca_system_score_gemma":0.00004302701,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001196971,"about_ca_topic_score_gemma":0.0008227387,"domain_scores_codex":[0.999149,0.0000595821,0.0002922458,0.0001899426,0.0001178946,0.0001913421],"domain_scores_gemma":[0.9992762,0.0002832492,0.0001820271,0.00008911335,0.00009793897,0.00007143537],"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":[0.0001814117,0.00004873456,0.005730979,0.00001731967,0.00004586931,0.000001460148,0.003342592,0.00001479891,0.9870402,0.0008472966,0.0002560769,0.002473228],"study_design_scores_gemma":[0.003358641,0.003021797,0.5778481,0.00009169229,0.0004080356,0.000118894,0.02579241,0.0003468552,0.2285229,0.00181117,0.1573856,0.001293925],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9956356,0.002941838,0.000004205984,0.0001531159,0.0002239579,0.0002772965,0.0004023486,0.00001438597,0.0003472751],"genre_scores_gemma":[0.9982159,0.001230398,0.0002511254,0.00002499001,0.0001405611,0.000004095206,0.00004347141,0.00000185063,0.00008760799],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7585173,"threshold_uncertainty_score":0.2340903,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07898239858109506,"score_gpt":0.2286491166545185,"score_spread":0.1496667180734234,"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."}}