{"id":"W3000337167","doi":"10.1101/2020.01.15.908442","title":"Microbial DNA on the move: sequencing based detection and analysis of transduced DNA in pure cultures and microbial communities","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"National Institute of Food and Agriculture; National Institutes of Health; Foundation for Food and Agriculture Research; University of Texas Southwestern Medical Center; North Carolina State University; U.S. Department of Agriculture; Howard Hughes Medical Institute","keywords":"Horizontal gene transfer; Biology; Transduction (biophysics); Microbiome; Genome; Metagenomics; Gene; DNA sequencing; DNA; Computational biology; Genetics; Bacterial genome size; Evolutionary biology","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007588757,0.0004711189,0.0004001101,0.0008766142,0.0003196022,0.0007645928,0.0003615894,0.0007305737,0.0004677309],"category_scores_gemma":[0.001263808,0.0002629649,0.0003528684,0.0006453992,0.0006072234,0.0005357752,0.0006454059,0.0007469893,0.0004297766],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001759256,"about_ca_system_score_gemma":0.0002078863,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006371311,"about_ca_topic_score_gemma":0.0009049437,"domain_scores_codex":[0.999126,0.0001695344,0.00004555064,0.0002772349,0.000325803,0.0000560198],"domain_scores_gemma":[0.9990088,0.000319602,0.0002589257,0.00008242658,0.0002385832,0.00009169613],"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":[0.00006081293,0.00006533035,0.004911077,0.00006453414,0.00002056809,0.00004483397,0.0001372642,0.0003869524,0.9896204,0.0001071238,0.00005329266,0.004527932],"study_design_scores_gemma":[0.00001707358,0.0009118519,0.05031374,0.0000604115,0.0001416157,0.0005286573,0.0006940283,0.02534667,0.9171841,0.001030383,0.003709701,0.0000617976],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9257528,0.0006738395,0.069804,0.0001276827,0.00004517553,0.0001489472,0.001793453,0.0003973442,0.001256858],"genre_scores_gemma":[0.8674894,0.0008684912,0.1262085,0.0003767996,0.00004202375,0.0002919703,0.002634622,0.0001434204,0.001944804],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008766142,"threshold_uncertainty_score":0.00401336,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01514948823625646,"score_gpt":0.2141662268542521,"score_spread":0.1990167386179956,"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."}}