{"id":"W4384828649","doi":"10.1101/2023.07.17.549354","title":"Longitudinal Variability of <i>Bifidobacterium</i> Species in the Infant Gut is Independent of Maternal Milk HMO Composition","year":2023,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Azrieli Foundation; Israel Science Foundation; Waterloo Foundation","keywords":"Bifidobacterium; Biology; Microbiome; Breast milk; Gut flora; Bifidobacterium longum; Context (archaeology); Cohort; Breast feeding; Metagenomics; Zoology; Immunology; Bacteria; Lactobacillus; Medicine; Internal medicine; Bioinformatics; Genetics; Pediatrics","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0006606306,0.0001638083,0.0002446985,0.0003263004,0.0003048675,0.0003994523,0.0002115658,0.0002900693,0.0006115267],"category_scores_gemma":[0.001180871,0.0002014787,0.0002596829,0.0003307974,0.0001667811,0.0002211689,0.0003920405,0.0003416629,0.0002153104],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002085504,"about_ca_system_score_gemma":0.0001565621,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003566245,"about_ca_topic_score_gemma":0.004793119,"domain_scores_codex":[0.9996176,0.0000849155,0.00001991326,0.0001563369,0.00005853135,0.00006270102],"domain_scores_gemma":[0.9993773,0.00009753109,0.0002485049,0.00008987727,0.0001085772,0.00007823268],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003768737,0.00004032627,0.9436746,0.0000303639,0.0001762122,0.00009244201,0.0003562307,0.00007564184,0.04687192,0.00004512741,0.0002172865,0.008042892],"study_design_scores_gemma":[0.00000123923,0.00008018519,0.9981646,0.000004979654,0.00002385611,0.0000883823,0.000107334,0.0001299089,0.001123162,0.00001400278,0.0002594872,0.000002820777],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9984862,0.0003480876,0.000483203,0.00002481956,0.000004691837,0.000004908542,0.0004017537,0.000009958609,0.0002363584],"genre_scores_gemma":[0.9983547,0.0001632926,0.0005120406,0.00004052796,0.000005276774,0.00001799636,0.0006760064,0.000007636825,0.0002225728],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003566245,"threshold_uncertainty_score":0.007090926,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01803120950114516,"score_gpt":0.2402538963374362,"score_spread":0.2222226868362911,"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."}}