{"id":"W4406411627","doi":"10.1146/annurev-anchem-071124-113819","title":"Clinical Microbiome Analysis by Mass Spectrometry–Based Metaproteomics","year":2025,"lang":"en","type":"review","venue":"Annual Review of Analytical Chemistry","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa; Health Canada","funders":"","keywords":"Metaproteomics; Microbiome; Proteomics; Computational biology; Human microbiome; Metagenomics; Data science; Computer science; Bioinformatics; Biology","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":[0.002340487,0.00141061,0.001675245,0.004571065,0.0002823916,0.001976986,0.0009435329,0.00109825,0.002182525],"category_scores_gemma":[0.002087523,0.0004715986,0.001048181,0.003522657,0.0004985537,0.001669488,0.001243314,0.001697713,0.002398427],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005928747,"about_ca_system_score_gemma":0.001320695,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007457461,"about_ca_topic_score_gemma":0.001319917,"domain_scores_codex":[0.9990396,0.0001882208,0.00007428494,0.0002139729,0.0004169156,0.00006690341],"domain_scores_gemma":[0.9991369,0.0004119134,0.0001293376,0.00003379847,0.000236429,0.0000516419],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001182632,0.0001041062,0.001464345,0.02526265,0.000491408,0.0003109974,0.00008760724,0.0007355439,0.01951728,0.00528304,0.02001136,0.9266134],"study_design_scores_gemma":[0.00002596854,0.0002193421,0.004127187,0.004769076,0.0004694093,0.002288293,0.0001376453,0.0009616358,0.01463839,0.00532617,0.9669182,0.000118721],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.0004971313,0.9945896,0.002457931,0.0004651184,0.0003152135,0.00002366668,0.0001152548,0.00004005251,0.001496027],"genre_scores_gemma":[0.002742086,0.992503,0.003167177,0.0003623185,0.0002623484,0.00002944712,0.000174189,0.00001111643,0.0007483215],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.004571065,"threshold_uncertainty_score":0.0123778,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0205461255196875,"score_gpt":0.3909633147197822,"score_spread":0.3704171892000947,"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."}}