{"id":"W4389935020","doi":"10.1021/acssynbio.3c00399","title":"An Expanded Genetic Toolbox to Accelerate the Creation of <i>Acholeplasma laidlawii</i> Driven by Synthetic Genomes","year":2023,"lang":"en","type":"article","venue":"ACS Synthetic Biology","topic":"Microbial infections and disease research","field":"Immunology and Microbiology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Natural Sciences and Engineering Research Council of Canada; Universiteit van Amsterdam; Government of Canada","keywords":"Mollicutes; Genome; Biology; Electroporation; Transposable element; Synthetic biology; Genetics; Mobile genetic elements; Bacterial genome size; Gene; Computational biology; Bacteria","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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0004439758,0.0002184533,0.0003450119,0.0002309327,0.0003307742,0.00002910328,0.0004878963,0.0002987024,0.000652662],"category_scores_gemma":[0.0001495358,0.0001563358,0.0001061398,0.0004924582,0.0004995638,0.00006647854,0.0001422912,0.0002175431,0.001449384],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003776998,"about_ca_system_score_gemma":0.00007165808,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002244918,"about_ca_topic_score_gemma":0.00003117629,"domain_scores_codex":[0.9978073,0.0006745672,0.0003880183,0.0004327337,0.00004394457,0.0006534017],"domain_scores_gemma":[0.99865,0.0003869301,0.0001029592,0.0006670132,0.0001101592,0.00008298209],"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":[0.0000890392,0.0001843938,0.003932075,0.00001542346,0.0001137129,0.000001091841,0.000409785,0.00008344049,0.9751535,0.000654702,0.005891501,0.01347134],"study_design_scores_gemma":[0.001022521,0.0009953532,0.008531535,0.00005233761,0.0001342273,0.0001093126,0.0007802459,0.00008118689,0.8819486,0.0005342832,0.1052998,0.0005105527],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9952639,0.001272643,0.0002948188,0.0009590058,0.0003878569,0.0005330777,0.0002613325,0.0001272321,0.0009001679],"genre_scores_gemma":[0.9978703,0.0004892924,0.00003609377,0.0002918277,0.0000422165,0.0001508107,0.0002571466,0.00002896798,0.0008333852],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09940832,"threshold_uncertainty_score":0.9993281,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01908623526857994,"score_gpt":0.2959359465124468,"score_spread":0.2768497112438669,"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."}}