{"id":"W3185964176","doi":"10.1186/s12915-021-01078-1","title":"Genomics and transcriptomics yields a system-level view of the biology of the pathogen Naegleria fowleri","year":2021,"lang":"en","type":"article","venue":"BMC Biology","topic":"Legionella and Acanthamoeba research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":36,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University; University of Alberta","funders":"College of Medicine, University of Cincinnati; Centro de Investigación Biomédica en Red Enfermedades Cardiovasculares; Faculty of Medicine and Dentistry, University of Alberta; Akademie Věd České Republiky; Alberta Heritage Foundation for Medical Research; Canada Research Chairs; Dalhousie University; Commonwealth Scientific and Industrial Research Organisation; University of Alberta; School of Medicine, Virginia Commonwealth University; Univerzita Karlova v Praze; Virginia Commonwealth University; University of Bern; Ostravská Univerzita v Ostravě; Grantová Agentura České Republiky; Biologické Centrum, Akademie Věd České Republiky; Inselspital, Universitätsspital Bern; Přírodovědecká Fakulta, Univerzita Karlova; University of Cincinnati; Cincinnati Children's Hospital Medical Center","keywords":"Biology; Naegleria fowleri; Pathogen; Transcriptome; Genomics; Naegleria; Computational biology; Protozoa; Genome; Microbiology; Genetics; Gene; Virology; Gene expression","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":[0.0003648764,0.0006537729,0.0004499211,0.0004464126,0.0003282493,0.0009433136,0.0002311474,0.0006052101,0.0007559226],"category_scores_gemma":[0.0002564677,0.000205901,0.0005442005,0.0004903713,0.0004131333,0.0008136209,0.0004024572,0.0007809332,0.0003797998],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006459004,"about_ca_system_score_gemma":0.0004677349,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009549619,"about_ca_topic_score_gemma":0.001484302,"domain_scores_codex":[0.9998021,0.00002213435,0.00001230612,0.00008828186,0.00004762345,0.00002757761],"domain_scores_gemma":[0.9998232,0.00005779902,0.00003879947,0.00002641537,0.00003552282,0.00001827113],"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":[0.00007351729,0.00001888711,0.002443459,0.0002329322,0.00002812322,0.00007478143,0.00007082614,0.0004929331,0.9910219,0.0005069557,0.0001394707,0.004896287],"study_design_scores_gemma":[0.00003116442,0.0007959483,0.2088006,0.0002917009,0.0004962881,0.001404755,0.001111861,0.02745688,0.7007102,0.01051136,0.04827719,0.0001120422],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8467262,0.01137536,0.1150498,0.002025548,0.0002501077,0.0001502282,0.01605628,0.0009082343,0.007458139],"genre_scores_gemma":[0.8750202,0.009374381,0.0942141,0.0009646798,0.0001333849,0.0002233359,0.01654074,0.000197564,0.003331562],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009549619,"threshold_uncertainty_score":0.004686415,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03470163474683405,"score_gpt":0.2689126058511946,"score_spread":0.2342109711043606,"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."}}