{"id":"W3000300130","doi":"10.3389/fimmu.2019.02874","title":"Transcriptome Profiling of Bovine Macrophages Infected by Mycobacterium avium spp. paratuberculosis Depicts Foam Cell and Innate Immune Tolerance Phenotypes","year":2020,"lang":"en","type":"article","venue":"Frontiers in Immunology","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":71,"is_retracted":false,"has_abstract":true,"ca_institutions":"Agriculture and Agri-Food Canada; Université de Sherbrooke","funders":"Agriculture and Agri-Food Canada; Université de Sherbrooke; Natural Sciences and Engineering Research Council of Canada; Canadian Network for Research and Innovation in Machining Technology, Natural Sciences and Engineering Research Council of Canada; Compute Canada; Dairy Farmers of Canada","keywords":"Paratuberculosis; Biology; Innate immune system; Immune system; Immunology; Transcriptome; Gene expression profiling; Microbiology; Gene; Gene expression; Mycobacterium; Genetics","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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0001587759,0.0002928695,0.0009043096,0.0002230743,0.00005325596,0.0000222293,0.0002006787,0.0002629707,0.00009939698],"category_scores_gemma":[0.0002344019,0.0002808714,0.0001042127,0.0005431512,0.0003000304,0.0001708767,0.00007937953,0.0005375778,0.00001363434],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006077646,"about_ca_system_score_gemma":0.0001035286,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001680525,"about_ca_topic_score_gemma":0.000003002039,"domain_scores_codex":[0.9979531,0.0001845322,0.0005944321,0.0004680407,0.0001948035,0.0006051292],"domain_scores_gemma":[0.999154,0.00007751301,0.0001462323,0.0003032773,0.0001310918,0.0001879213],"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":[0.002386046,0.0002342247,0.1544824,0.0005457306,0.0001680956,0.00005485586,0.0005409266,0.000001606664,0.8366158,0.00001541189,0.003849532,0.001105394],"study_design_scores_gemma":[0.005083132,0.001798052,0.2228137,0.0001259265,0.0001184241,0.0000181734,0.0002670235,0.0002874277,0.7660694,0.00006554796,0.003040323,0.000312896],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9563175,0.03985518,0.0007040247,0.001479701,0.0004890923,0.0006238453,0.00008311147,0.00006697949,0.0003806074],"genre_scores_gemma":[0.9887657,0.006689532,0.003704818,0.0004066061,0.00006185348,0.00007724463,0.0001578013,0.00004249522,0.00009392951],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.07054638,"threshold_uncertainty_score":0.9999644,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00848302012223622,"score_gpt":0.2321093856254181,"score_spread":0.2236263655031819,"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."}}