{"id":"W4413656546","doi":"10.1128/spectrum.01308-25","title":"Cerebrospinal fluid microbiome revisited: no evidence of resident bacteria in archived samples","year":2025,"lang":"en","type":"article","venue":"Microbiology Spectrum","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Columbia College; College of Physicians and Surgeons of Ontario","funders":"National Institute on Aging","keywords":"Microbiome; Cerebrospinal fluid; Bacteria; Biology; Metagenomics; Computational biology; Genetics; Gene; Neuroscience","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0003574525,0.0002649574,0.0004577333,0.0002674597,0.00007529264,0.00001601537,0.0004559206,0.0002861501,0.0002002893],"category_scores_gemma":[0.0001088792,0.0002611265,0.0001430231,0.0002066166,0.0002872609,0.000005777848,0.0003144299,0.0002023304,0.00005911943],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006625941,"about_ca_system_score_gemma":0.0002945787,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002844483,"about_ca_topic_score_gemma":0.0007877491,"domain_scores_codex":[0.9979138,0.0002306919,0.0006187079,0.0006587769,0.0000278603,0.000550112],"domain_scores_gemma":[0.9990624,0.00004616927,0.00016891,0.000598443,0.00006922356,0.00005487896],"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":[0.000634551,0.00006826281,0.01728786,0.0002250488,0.00005016892,0.000003825623,0.00004737218,0.00000188669,0.973784,0.0002073713,0.007628473,0.00006117815],"study_design_scores_gemma":[0.0008227697,0.0006227838,0.08938402,0.0005699809,0.00002175506,0.00005499583,0.00002868326,0.000001132981,0.8667027,0.0001398653,0.0413829,0.000268394],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9930113,0.004369217,0.0002177326,0.001037137,0.0003909454,0.000390277,0.0001350342,0.00001482906,0.0004335147],"genre_scores_gemma":[0.993899,0.00139291,0.001671142,0.0008260531,0.0001271675,0.00001308943,0.0003732874,0.00002001913,0.001677274],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1070813,"threshold_uncertainty_score":0.9999841,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01178219707680343,"score_gpt":0.2781357499053937,"score_spread":0.2663535528285903,"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."}}