{"id":"W4407316154","doi":"10.1371/journal.pone.0309880","title":"Bronchoalveolar lavage single-cell transcriptomics reveals immune dysregulations driving COVID-19 severity","year":2025,"lang":"en","type":"article","venue":"PLoS ONE","topic":"COVID-19 Clinical Research Studies","field":"Medicine","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"Institut National de la Recherche Scientifique","funders":"Institut national de la recherche scientifique","keywords":"Bronchoalveolar lavage; Immunology; Inflammation; Immune system; Phagocytosis; Efferocytosis; Biology; Downregulation and upregulation; CD80; TLR2; Interleukin 8; Innate immune system; Macrophage; Medicine; CD40; Cytotoxic T cell; Lung; Internal medicine","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":[0.000278242,0.0003019376,0.0005555594,0.0005272602,0.0003130844,0.0006411585,0.0001595263,0.0004660984,0.001152388],"category_scores_gemma":[0.0003632841,0.0001849526,0.0004476611,0.0003773655,0.000309613,0.0002086357,0.0004015706,0.0006328208,0.000401875],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002516854,"about_ca_system_score_gemma":0.000187092,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006929972,"about_ca_topic_score_gemma":0.001109042,"domain_scores_codex":[0.999637,0.00003254724,0.00003045297,0.0001358932,0.00007604712,0.00008794857],"domain_scores_gemma":[0.9997869,0.00003242568,0.00006328795,0.00002100545,0.00004914995,0.00004732793],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0007315695,0.00003840206,0.0465398,0.0001283243,0.00006946172,0.0005635865,0.0001646319,0.0001729033,0.9477287,0.00007494532,0.0002356822,0.003552079],"study_design_scores_gemma":[0.00004268311,0.0007592753,0.8600014,0.00006704043,0.000165452,0.002972272,0.0009951122,0.002474053,0.1280429,0.0004610973,0.003976513,0.00004209971],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9924313,0.001160461,0.001612598,0.00008759325,0.00002349855,0.00003779589,0.00414115,0.00003885715,0.0004667617],"genre_scores_gemma":[0.9913173,0.0007367177,0.001811488,0.0002083306,0.00002236351,0.0000841689,0.00506985,0.00002432,0.0007255374],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001152388,"threshold_uncertainty_score":0.003855169,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08699834764791468,"score_gpt":0.3629000415772651,"score_spread":0.2759016939293504,"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."}}