{"id":"W2136499960","doi":"10.1094/mpmi-19-1167","title":"Whole-Genome Expression Profiling Defines the HrpL Regulon of <i>Pseudomonas syringae</i> pv. <i>tomato</i> DC3000, Allows de novo Reconstruction of the Hrp <i>cis</i> Element, and Identifies Novel Coregulated Genes","year":2006,"lang":"en","type":"article","venue":"Molecular Plant-Microbe Interactions","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":119,"is_retracted":false,"has_abstract":true,"ca_institutions":"Wilfrid Laurier University","funders":"Agricultural Research Service; U.S. Department of Agriculture; National Science Foundation","keywords":"Pseudomonas syringae; Regulon; Biology; Effector; Genetics; Gene; Promoter; Type three secretion system; Sigma factor; Computational biology; Virulence; Regulation of gene expression; Gene expression; Cell biology","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":[0.00006794192,0.0002493809,0.0001923419,0.000199261,0.0001213143,0.0002008113,0.0000951781,0.0001235204,0.0006330847],"category_scores_gemma":[0.0001235251,0.0001125452,0.0001774195,0.0002463157,0.0001639822,0.0001342418,0.0001393565,0.0002963679,0.0002096555],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002916975,"about_ca_system_score_gemma":0.000195425,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001189733,"about_ca_topic_score_gemma":0.002213275,"domain_scores_codex":[0.9999129,0.000008051272,0.000004043348,0.00003344053,0.00002367389,0.00001789257],"domain_scores_gemma":[0.9999393,0.00001196811,0.00001708949,0.000006146839,0.00001117385,0.00001426046],"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":[0.00002935807,0.000006670596,0.0006986819,0.00001151871,0.000001863904,0.000007958526,0.000006275044,0.00003848185,0.9985739,0.00001620584,0.00001324144,0.0005958141],"study_design_scores_gemma":[0.00001313157,0.0002466477,0.2376353,0.00000735497,0.00003163721,0.0004282664,0.0001191439,0.003414596,0.7557998,0.0001783925,0.002113295,0.00001251473],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993396,0.0002352598,0.003147852,0.000046449,0.000003510938,0.00002034691,0.002368883,0.00006370678,0.0007179338],"genre_scores_gemma":[0.9870542,0.0002698142,0.005392594,0.00005259294,0.000003834215,0.00004291705,0.006030369,0.00003643716,0.001117265],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001189733,"threshold_uncertainty_score":0.002365589,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009593143436747654,"score_gpt":0.1925159100655514,"score_spread":0.1829227666288037,"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."}}