{"id":"W2157873810","doi":"10.1128/jb.187.23.7996-8005.2005","title":"Growth Substrate- and Phase-Specific Expression of Biphenyl, Benzoate, and C <sub>1</sub> Metabolic Pathways in <i>Burkholderia xenovorans</i> LB400","year":2005,"lang":"en","type":"article","venue":"Journal of Bacteriology","topic":"Microbial bioremediation and biosurfactants","field":"Environmental Science","cited_by":98,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Fonds Wetenschappelijk Onderzoek; National Institute of Environmental Health Sciences; Genome British Columbia; Vlaamse regering; U.S. Department of Energy","keywords":"Biochemistry; Biphenyl; Biology; Metabolic pathway; Catabolism; Enzyme; Metabolism; Chemistry; Organic chemistry","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0003843643,0.0001385131,0.0003653115,0.00009837186,0.00003411968,0.00001662996,0.0001224675,0.0001280238,0.0002434904],"category_scores_gemma":[0.00001860235,0.0001062451,0.00004346901,0.0001384063,0.0002219314,0.000299428,0.00006154009,0.0001717941,0.000008966697],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002776081,"about_ca_system_score_gemma":0.00001530999,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009116802,"about_ca_topic_score_gemma":0.00004103083,"domain_scores_codex":[0.9988099,0.0001134925,0.0005863688,0.0001753976,0.0001183273,0.0001965605],"domain_scores_gemma":[0.9993433,0.00004016763,0.0003929244,0.00008369156,0.00002198969,0.0001179452],"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":[0.0001827889,0.0001233854,0.01808663,0.000006211396,0.000005221838,0.000008912076,0.0003123253,0.000003837043,0.9742703,0.0000147597,0.0002052597,0.006780368],"study_design_scores_gemma":[0.001518191,0.0001947511,0.2125033,0.00002233366,0.000007810747,0.00008152497,0.00004181948,0.000009708008,0.7830428,0.00005812566,0.002422911,0.00009673359],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9989383,0.0005344851,0.00001973654,0.0001857771,0.0001207427,0.0000850709,0.00002036367,0.000003907303,0.00009167843],"genre_scores_gemma":[0.9957162,0.003514711,0.0005498714,0.0001326722,0.00007189181,5.829841e-7,0.000003714093,0.00000815997,0.000002191407],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1944167,"threshold_uncertainty_score":0.4332549,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01414347836704532,"score_gpt":0.2120499216292474,"score_spread":0.1979064432622021,"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."}}