{"id":"W3045493561","doi":"10.1101/2020.07.24.20161448","title":"Transcriptomics of Bronchoalveolar Lavage Cells Identifies New Molecular Endotypes of Sarcoidosis","year":2020,"lang":"en","type":"preprint","venue":"medRxiv","topic":"Sarcoidosis and Beryllium Toxicity Research","field":"Medicine","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"Centers for Disease Control and Prevention; National Institutes of Health; Georgia Clinical and Translational Science Alliance","keywords":"Sarcoidosis; Bronchoalveolar lavage; Transcriptome; Immune system; Medicine; Immunology; Phenotype; Immune dysregulation; Disease; Gene expression; Gene; Pathology; Biology; Lung; Internal medicine; Genetics","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":[0.0001095964,0.000147058,0.0002490952,0.0004628394,0.0001816377,0.0002858214,0.00007691626,0.0001688851,0.0006015758],"category_scores_gemma":[0.0001791106,0.00006837453,0.0001549589,0.0004135778,0.000197804,0.00009061711,0.0001880841,0.0002067361,0.0001584007],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001211842,"about_ca_system_score_gemma":0.00007155556,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004204932,"about_ca_topic_score_gemma":0.0007980966,"domain_scores_codex":[0.9998798,0.00002344119,0.000009158289,0.00004074454,0.00002401277,0.00002288021],"domain_scores_gemma":[0.9998987,0.0000298842,0.00002801434,0.0000119972,0.00001703829,0.00001440946],"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":[0.0003764022,0.00003215327,0.2130455,0.00005931209,0.00005789223,0.0004420896,0.0002121816,0.0003593651,0.7777418,0.00007153435,0.0001660034,0.007435769],"study_design_scores_gemma":[0.000009651329,0.0001123708,0.968959,0.000009851506,0.00003518243,0.001091077,0.0002972242,0.001543149,0.0270256,0.000162262,0.0007491908,0.000005502912],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998376,0.0002233047,0.0006621145,0.00002210308,0.000002548652,0.000006773434,0.0005202587,0.000009693266,0.000177211],"genre_scores_gemma":[0.998165,0.0001063689,0.0006318102,0.00002784707,0.000005351202,0.00001711682,0.0008724196,0.00000423128,0.0001699131],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0006015758,"threshold_uncertainty_score":0.002012491,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04488672283187611,"score_gpt":0.3083109663304259,"score_spread":0.2634242434985498,"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."}}