{"id":"W3144300192","doi":"10.1101/2021.04.07.438883","title":"An inventory of early branch points in microbial phosphonate biosynthesis","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Biochemical and Molecular Research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Wilfrid Laurier University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Mutase; Biosynthesis; Phosphonate; Gene; Operon; Biology; Horizontal gene transfer; Enzyme; Biochemistry; Genome; Chemistry; Stereochemistry; Genetics; Escherichia coli","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":[0.0005328589,0.0004534481,0.0005351945,0.0001990048,0.00004615836,0.00009561433,0.0008080099,0.0009651344,0.00004242171],"category_scores_gemma":[0.0002109513,0.000517178,0.000258661,0.0003478297,0.0002310962,0.00001058045,0.0007960364,0.0006152147,0.000008947503],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007509784,"about_ca_system_score_gemma":0.0007431901,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002732321,"about_ca_topic_score_gemma":0.00002287613,"domain_scores_codex":[0.9970716,0.0002724648,0.0005455727,0.001187423,0.0003437062,0.0005792358],"domain_scores_gemma":[0.9975892,0.00001178692,0.0002378412,0.001446182,0.0004308684,0.0002841281],"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":[0.0001362834,0.0003793764,0.009027909,0.0002967223,0.0001224732,0.00004049419,0.000009174802,0.000007623911,0.9898701,0.00001617143,0.00008611483,0.000007582846],"study_design_scores_gemma":[0.0005139119,0.0001187988,0.02777177,0.0002744531,0.00003026768,2.866831e-8,0.000002448812,0.00002050131,0.9699876,0.0000013437,0.0007576782,0.0005211752],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9962374,0.002552152,0.000251609,0.0000785455,0.0002969272,0.0003915767,0.0001536193,0.00003077754,0.000007383635],"genre_scores_gemma":[0.9974021,0.000495615,0.001547481,0.0001643259,0.0001971305,0.00007122797,0.000005375693,0.0001109267,0.000005826124],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01988245,"threshold_uncertainty_score":0.999728,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01047977577680993,"score_gpt":0.2319654510531263,"score_spread":0.2214856752763164,"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."}}