{"id":"W3115491005","doi":"10.1101/2020.12.21.423830","title":"Single-cell RNA-sequencing reveals pervasive but highly cell type-specific genetic ancestry effects on the response to viral infection","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":8,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Montreal Heart Institute","funders":"University of Chicago; National Science Foundation","keywords":"Biology; Immune system; Genetic variation; Population; Genetics; Cell type; Phenotype; Gene; Expression quantitative trait loci; Interferon; RNA; Cell; Virology; Immunology; Genotype; Single-nucleotide polymorphism","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":[0.0005076029,0.0007369148,0.0005216866,0.0001481552,0.0002652286,0.0002494725,0.0006768294,0.0007654675,0.0000116078],"category_scores_gemma":[0.0003807067,0.0006899502,0.000265587,0.0003820822,0.0001060361,0.000009976613,0.0003644396,0.0008569677,0.000125306],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003209027,"about_ca_system_score_gemma":0.0005693685,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005543755,"about_ca_topic_score_gemma":0.000002848784,"domain_scores_codex":[0.9964448,0.0005884372,0.0005431678,0.00141741,0.000382513,0.0006236822],"domain_scores_gemma":[0.9973447,0.0001485445,0.0003510907,0.001411905,0.0003905201,0.0003532836],"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":[0.0008247566,0.0001314054,0.001154809,0.0003271768,0.00006168179,0.00006711393,0.00002501305,0.0004075396,0.9960526,0.00001365976,0.0009273695,0.000006915903],"study_design_scores_gemma":[0.0005338007,0.001066294,0.01254214,0.000278754,0.00007631201,6.361298e-8,0.000004210215,0.00004111194,0.9764805,0.000002453489,0.008193946,0.0007803467],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9932297,0.001341156,0.001534804,0.0004330348,0.002032878,0.001149487,0.0001041099,0.0001354155,0.00003939089],"genre_scores_gemma":[0.9939316,0.0005027147,0.002229343,0.001490811,0.001463181,0.0001516388,0.000002173861,0.0001937136,0.00003482556],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01957199,"threshold_uncertainty_score":0.9995552,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02668150472613988,"score_gpt":0.2149786203852281,"score_spread":0.1882971156590882,"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."}}