{"id":"W3130198625","doi":"10.1101/2021.02.18.431927","title":"Transcriptomic and metabolomic responses to carbon and nitrogen sources in <i>Methylomicrobium album BG8</i>","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Microbial metabolism and enzyme function","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Natural Sciences and Engineering Research Council of Canada; Canada First Research Excellence Fund; Alberta Innovates","keywords":"Methanotroph; Biology; Biochemistry; Pentose phosphate pathway; Nitrogen assimilation; Chemistry; Metabolism; Anaerobic oxidation of methane; Glycolysis; Enzyme","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0005958637,0.0005382756,0.0006359886,0.0002893531,0.00008244222,0.0001580054,0.0002601595,0.0006400672,0.000006611721],"category_scores_gemma":[0.0001836515,0.0006083203,0.0001083009,0.0002504918,0.0001183726,0.00001155535,0.0005273735,0.0004232918,0.000002587374],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004197728,"about_ca_system_score_gemma":0.0003212852,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003504369,"about_ca_topic_score_gemma":0.00007705199,"domain_scores_codex":[0.9973288,0.0003115191,0.0004600741,0.001275246,0.0001276095,0.0004967331],"domain_scores_gemma":[0.9986624,0.0000213294,0.0001534217,0.0007601528,0.0001494961,0.000253276],"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":[0.0002943723,0.00005060693,0.008837242,0.0001641381,0.0001075043,0.0000140913,0.00003387078,0.00001796224,0.9903003,0.000009093575,0.0001671334,0.00000366821],"study_design_scores_gemma":[0.000715023,0.00006272702,0.03794198,0.0001260404,0.0001377382,2.071778e-7,0.0000172149,0.00001442351,0.9497052,8.54408e-7,0.01062987,0.0006486605],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9764262,0.02158474,0.0001574526,0.0001953812,0.0007928072,0.0005305154,0.0002660541,0.00004435201,0.000002496653],"genre_scores_gemma":[0.9940906,0.002709237,0.001978613,0.0005939734,0.000400633,0.0001040065,0.000002508435,0.0001070022,0.00001339565],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04059505,"threshold_uncertainty_score":0.9996368,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007741918594961522,"score_gpt":0.2002916668142394,"score_spread":0.1925497482192779,"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."}}