{"id":"W4405711426","doi":"10.1101/2024.12.19.629541","title":"The use of variational autoencoders to characterise the heterogeneous subpopulations that arise due to antibiotic treatment","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Evolution and Genetic Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"","keywords":"Antibiotic resistance; Computational biology; Biology; Autoencoder; DNA sequencing; Protocol (science); Antibiotics; Gene; Computer science; Genetics; Artificial intelligence; Medicine","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":[0.001013973,0.0005155877,0.0003562885,0.0003132155,0.0002033748,0.0005267102,0.0006367143,0.000764083,0.0003725858],"category_scores_gemma":[0.002156137,0.0004062862,0.0004402471,0.0001591485,0.0005339231,0.0004811693,0.0004906672,0.0009390738,0.0001144479],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005811537,"about_ca_system_score_gemma":0.0005870797,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.006187977,"about_ca_topic_score_gemma":0.005909094,"domain_scores_codex":[0.9998448,0.00005679237,0.000007176945,0.00004354401,0.00002567358,0.00002211319],"domain_scores_gemma":[0.9993402,0.0004011314,0.00008803523,0.00005351061,0.00008190368,0.00003505472],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00005869008,0.00003995874,0.002978649,0.0000295353,0.00006869376,0.00003735467,0.00007282099,0.9402005,0.0280996,0.003143222,0.0003314233,0.02493956],"study_design_scores_gemma":[8.133546e-7,0.000006524587,0.0002489195,0.000001079055,0.000001606316,0.000003010493,0.000002711756,0.9980897,0.001116514,0.0004683771,0.00005834254,0.000002386289],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.2479399,0.0002518427,0.7496502,0.0003524913,0.00003730255,0.00003289757,0.0001069346,0.0003860121,0.001242287],"genre_scores_gemma":[0.8626283,0.0001375461,0.1347313,0.0001386446,0.00002258745,0.00005590182,0.0002088286,0.00009832637,0.00197849],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.006187977,"threshold_uncertainty_score":0.01230389,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0235165940454639,"score_gpt":0.2396541517890707,"score_spread":0.2161375577436068,"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."}}