{"id":"W3198491252","doi":"10.1101/2021.08.29.458111","title":"Stochastic microbiome assembly depends on context","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Insect symbiosis and bacterial influences","field":"Agricultural and Biological Sciences","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"Army Research Office; Division of Integrative Organismal Systems; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Carnegie Institution for Science; Carnegie Institution of Washington; David and Lucile Packard Foundation; Division of Mathematical Sciences; National Institutes of Health; National Science Foundation","keywords":"Microbiome; Biology; Context (archaeology); Colonization; Metagenomics; Organism; Fecal bacteriotherapy; Evolutionary biology; Drosophila melanogaster; Human microbiome; Dysbiosis; Ecology; Computational biology; Genetics; Gene; Antibiotics","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001830108,0.0004653128,0.0007058632,0.0005789928,0.0005645491,0.001500227,0.0007785777,0.0009042128,0.001221836],"category_scores_gemma":[0.008889645,0.0006111594,0.0008598951,0.0003102749,0.001575286,0.001410575,0.001220724,0.001189563,0.0002372377],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008450497,"about_ca_system_score_gemma":0.0007193986,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004793827,"about_ca_topic_score_gemma":0.003692752,"domain_scores_codex":[0.9988771,0.000363448,0.00005504613,0.0004244789,0.0001448087,0.0001351898],"domain_scores_gemma":[0.9939719,0.003056601,0.001430861,0.0008837827,0.000303411,0.0003533092],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"observational","study_design_scores_codex":[0.0003614509,0.000112959,0.07516953,0.0002005004,0.0002811661,0.0005140242,0.0002325209,0.8039542,0.05265612,0.05234918,0.0007153691,0.01345299],"study_design_scores_gemma":[0.00002318167,0.0001144224,0.02228497,0.00001666183,0.00004558279,0.0001620872,0.00006201701,0.9496937,0.003598187,0.02335627,0.0005922433,0.00005069816],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7845911,0.000288204,0.2117701,0.0003463968,0.00003791227,0.00005472247,0.0004284303,0.0002976397,0.002185527],"genre_scores_gemma":[0.9932771,0.0001069494,0.00593972,0.00004914546,0.00001392237,0.00003826277,0.0001658224,0.0000226609,0.0003861881],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004793827,"threshold_uncertainty_score":0.009678602,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01751556790141498,"score_gpt":0.2052124723614535,"score_spread":0.1876969044600386,"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."}}