{"id":"W4385331538","doi":"10.1038/s41590-023-01558-2","title":"Exposure of iPSC-derived human microglia to brain substrates enables the generation and manipulation of diverse transcriptional states in vitro","year":2023,"lang":"en","type":"article","venue":"Nature Immunology","topic":"Neuroinflammation and Neurodegeneration Mechanisms","field":"Neuroscience","cited_by":151,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Institute of General Medical Sciences; Stanley Center for Psychiatric Research, Broad Institute; CIHR Skin Research Training Centre; University of California, Irvine; Kuopion Yliopistollinen Sairaala; National Institutes of Health; Deutsches Zentrum für Neurodegenerative Erkrankungen; Government of Canada; Canadian Institutes of Health Research; Open Philanthropy Project; Eunice Kennedy Shriver National Institute of Child Health and Human Development; Broad Institute; Life Sciences Research Foundation; Cure Alzheimer's Fund; National Institute on Aging; Alzheimer's Association; Howard Hughes Medical Institute","keywords":"Microglia; Neuroscience; Biology; Human brain; Cell biology; In vitro; Transcriptional regulation; Transcription factor; Gene; Immunology; Inflammation; Genetics","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000187641,0.0001004969,0.0001386345,0.000246623,0.0001153614,0.00001822974,0.0001375044,0.0001297701,0.00002580725],"category_scores_gemma":[0.0001529369,0.00008385262,0.00003069613,0.0003809429,0.0000921855,0.0001153673,0.0000342304,0.0002104769,0.000004974126],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001012641,"about_ca_system_score_gemma":0.00001700699,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001130268,"about_ca_topic_score_gemma":0.0000511498,"domain_scores_codex":[0.9989335,0.0002433803,0.0002969047,0.0002398741,0.000149017,0.0001373258],"domain_scores_gemma":[0.9995132,0.0001571718,0.0001108606,0.0001438698,0.00005762525,0.00001725251],"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":[0.00007578456,0.00002077852,0.00005812825,0.000009700972,0.000003199319,0.000004178473,0.000761553,0.000606153,0.9871026,0.01090351,0.0001364116,0.0003180148],"study_design_scores_gemma":[0.0004461247,0.0001008623,0.01655175,0.000005097736,0.000003623533,0.000007033605,0.0001648419,0.0009559224,0.9807923,0.0007457061,0.0001610923,0.00006562207],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9970896,0.0001052884,0.00006346731,0.002145985,0.0002345548,0.0002737866,0.00003904868,0.00003533905,0.00001299066],"genre_scores_gemma":[0.9990865,0.00007427027,0.00007587464,0.0005284105,0.00002688774,0.00001553235,0.00006187941,0.00001005348,0.0001206174],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01649363,"threshold_uncertainty_score":0.3419411,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03731224431711688,"score_gpt":0.2762603394427842,"score_spread":0.2389480951256673,"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."}}