{"id":"W2796628574","doi":"10.1128/msystems.00198-17","title":"Inferring the Minimal Genome of <i>Mesoplasma florum</i> by Comparative Genomics and Transposon Mutagenesis","year":2018,"lang":"en","type":"article","venue":"mSystems","topic":"Plant Virus Research Studies","field":"Agricultural and Biological Sciences","cited_by":23,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Sherbrooke","funders":"Fonds de recherche du Québec – Nature et technologies; Université de Sherbrooke; Natural Sciences and Engineering Research Council of Canada; National Institute of Environmental Health Sciences; Defense Advanced Research Projects Agency; Government of Canada","keywords":"Genome; Biology; Transposable element; Transposon mutagenesis; Comparative genomics; Genetics; Genomics; Computational biology; Mycoplasma mycoides; Genome evolution; Functional genomics; Mutagenesis; Cloning (programming); Gene; Mutation; Mycoplasma; Computer science","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":[0.0002536796,0.0001006151,0.0002090139,0.000006844999,0.0002530243,0.00003372431,0.0001952811,0.00003998684,0.00002248956],"category_scores_gemma":[0.00001090953,0.00003161526,0.00003573187,0.0001322644,0.000244101,0.00004353196,0.00006179074,0.00005475428,0.00001778317],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001552168,"about_ca_system_score_gemma":0.000004826644,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000459009,"about_ca_topic_score_gemma":0.001204884,"domain_scores_codex":[0.9991907,0.00008389289,0.0001799538,0.0001667368,0.0001639501,0.000214694],"domain_scores_gemma":[0.9995522,0.0002404954,0.00006353603,0.00004133473,0.00005134442,0.00005101513],"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":[0.00003609631,0.00001444677,0.002457392,0.00001347741,0.00003358641,8.128666e-7,0.001064559,0.000001095173,0.9947757,0.00001823589,0.0008434043,0.0007412338],"study_design_scores_gemma":[0.0004703477,0.001339668,0.1558902,0.00007830234,0.00004432942,0.0000330786,0.006957423,0.000760641,0.4374023,0.00003507312,0.3965129,0.0004757666],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9967177,0.001216092,0.000003837085,0.0002411522,0.00005279844,0.0002316069,0.0006048894,0.00001623187,0.0009156849],"genre_scores_gemma":[0.9994581,0.0001402527,0.000008205908,0.00003534615,0.0001623566,0.00001547075,0.00001863163,6.114066e-7,0.0001609716],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5573733,"threshold_uncertainty_score":0.1946084,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04743355544161515,"score_gpt":0.2508138523344538,"score_spread":0.2033802968928387,"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."}}