{"id":"W2980226446","doi":"10.1073/pnas.1907567116","title":"Sublethal antibiotics collapse gut bacterial populations by enhancing aggregation and expulsion","year":2019,"lang":"en","type":"article","venue":"Proceedings of the National Academy of Sciences","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":79,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Institute for Advanced Research","funders":"National Institute of Child Health and Human Development; National Institute of Allergy and Infectious Diseases; University of Oregon; National Institute of General Medical Sciences; Kavli Foundation; Eunice Kennedy Shriver National Institute of Child Health and Human Development; M.J. Murdock Charitable Trust; National Institutes of Health; National Science Foundation","keywords":"Antibiotics; Ciprofloxacin; Bacteria; Biology; Microbiome; Microbiology; Antimicrobial; Zebrafish; Bioinformatics; Genetics","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":[0.0003530939,0.00006205396,0.00008085991,0.0000393493,0.0001014689,0.00002031646,0.0001927989,0.00009232031,0.000006074087],"category_scores_gemma":[0.0001225498,0.00004685087,0.00003258677,0.0001534461,0.0002005541,0.00002435146,0.00005539845,0.00004976596,3.86082e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00000756392,"about_ca_system_score_gemma":0.0000182695,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000007026318,"about_ca_topic_score_gemma":3.796336e-7,"domain_scores_codex":[0.9992472,0.000004720405,0.000185463,0.0001725096,0.0003069295,0.00008319543],"domain_scores_gemma":[0.9996556,0.00001247767,0.0001800394,0.000007022816,0.0001246418,0.00002019892],"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":[0.00001933486,0.00001816963,0.02195361,0.00002591251,0.000003885494,4.55478e-10,0.00003398201,0.00001489539,0.9764061,0.001136903,0.0002276242,0.0001596111],"study_design_scores_gemma":[0.0002060715,0.00006934073,0.01840914,0.00004255053,0.00000569554,0.000002587583,0.00004933186,0.0002967762,0.9794281,0.001166484,0.0002636106,0.00006035051],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987257,0.0001033059,0.000006240974,0.0003598892,0.0000551322,0.0001227107,0.00001735871,0.000002480881,0.0006071769],"genre_scores_gemma":[0.9986416,0.00004871334,0.001002265,0.00007347265,0.0000707817,4.520662e-7,0.000002604356,0.000003405387,0.0001567434],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003544468,"threshold_uncertainty_score":0.1910523,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02414717453247972,"score_gpt":0.2726690943747588,"score_spread":0.2485219198422791,"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."}}