{"id":"W3100992234","doi":"10.1186/s40168-020-00935-5","title":"Transductomics: sequencing-based detection and analysis of transduced DNA in pure cultures and microbial communities","year":2020,"lang":"en","type":"article","venue":"Microbiome","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":57,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"National Institute of Diabetes and Digestive and Kidney Diseases; National Institute of Food and Agriculture; National Institutes of Health; Foundation for Food and Agriculture Research; National Institute of Allergy and Infectious Diseases; University of Texas Southwestern Medical Center; North Carolina State University; U.S. Department of Agriculture; Howard Hughes Medical Institute","keywords":"Biology; Microbial ecology; Medical microbiology; DNA sequencing; Computational biology; DNA; Genetics; Metagenomics; Evolutionary biology; Microbiology; Gene; Bacteria","routes":{"ca_aff":true,"ca_fund":false,"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":[0.00006211871,0.0001211262,0.0002310871,0.000139494,0.00003254926,0.00001596794,0.00009822522,0.0002338687,0.000007424042],"category_scores_gemma":[0.000004907463,0.0001172687,0.00006332849,0.0002848133,0.0001837242,0.000002161778,0.00003212897,0.00008370799,1.518595e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007822267,"about_ca_system_score_gemma":0.00002651594,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009691515,"about_ca_topic_score_gemma":0.001282028,"domain_scores_codex":[0.9994212,0.00004776452,0.0001887692,0.0001941886,0.00002312885,0.0001249608],"domain_scores_gemma":[0.9997587,0.000004509157,0.00005012627,0.0001229459,0.0000278056,0.0000358854],"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":[0.0001512061,0.00001575928,0.0003590744,0.00004253635,0.0001302217,9.578939e-7,0.0005499362,0.00004211089,0.9979988,0.000001882317,0.000005221194,0.0007022902],"study_design_scores_gemma":[0.0006280936,0.0002273038,0.00280873,0.000007302971,0.0001390148,0.000004779206,0.0002676926,0.0003301393,0.9943467,0.000003458349,0.00110355,0.0001332755],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9984991,0.0004688778,0.0003068992,0.0004119546,0.00002424054,0.0001073643,0.0001687541,0.000008029863,0.000004793783],"genre_scores_gemma":[0.9990315,0.0001944727,0.0002858647,0.000259886,0.00002145329,0.000002976172,0.0001917739,0.000009338422,0.000002730459],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003652143,"threshold_uncertainty_score":0.4782079,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01051585908622182,"score_gpt":0.2143153924435416,"score_spread":0.2037995333573198,"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."}}