{"id":"W2950217164","doi":"10.1101/674713","title":"Catabolism of alkylphenols in <i>Rhodococcus</i> via a <i>meta</i> -cleavage pathway associated with genomic islands","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Genome British Columbia; Génome Québec; Natural Sciences and Engineering Research Council of Canada; McGill University","keywords":"Alkylphenol; Catabolism; Dioxygenase; Gene; Biochemistry; Chemistry; Operon; Rhodococcus; Metabolic pathway; Biology; Mutant; 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":[0.0006841604,0.0006168802,0.0009444212,0.0002188837,0.00004136293,0.00004606833,0.0004935424,0.0007276892,0.000009589445],"category_scores_gemma":[0.0001327874,0.0005720355,0.0002258527,0.0003810157,0.0001015148,0.00001023154,0.0003529694,0.0005558222,0.00001068356],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007492374,"about_ca_system_score_gemma":0.0004352197,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00008932759,"about_ca_topic_score_gemma":0.00001886563,"domain_scores_codex":[0.9973987,0.0001467355,0.000604008,0.001087095,0.0002334759,0.0005300038],"domain_scores_gemma":[0.997699,0.0000110416,0.0005197587,0.001369773,0.0002815444,0.0001188385],"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":[0.00005815422,0.0001637951,0.004343411,0.0002242642,0.0006452843,0.000007208521,0.00001305272,0.0008658412,0.9933962,0.000009366072,0.0002709568,0.000002473437],"study_design_scores_gemma":[0.0008832961,0.0001134202,0.03392952,0.0001939589,0.000341564,6.688047e-8,0.000001814946,0.00005008339,0.9574147,4.814091e-7,0.006352509,0.000718614],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9919468,0.004265131,0.001523529,0.00003822432,0.000751198,0.0007887378,0.0005955419,0.00007460353,0.00001628546],"genre_scores_gemma":[0.9976434,0.0004962152,0.001011237,0.0001202879,0.000432889,0.0001150725,0.00001152251,0.0001450847,0.00002432744],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.03598152,"threshold_uncertainty_score":0.9996731,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007870130316696321,"score_gpt":0.1854030927245566,"score_spread":0.1775329624078603,"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."}}