{"id":"W4404517207","doi":"10.1038/s44320-024-00076-z","title":"Global atlas of predicted functional domains in Legionella pneumophila Dot/Icm translocated effectors","year":2024,"lang":"en","type":"article","venue":"Molecular Systems Biology","topic":"Legionella and Acanthamoeba research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University of Calgary","funders":"Canadian Institutes of Health Research - Antimicrobial Resistance Research Initiative; Division of Microbiology and Infectious Diseases, National Institute of Allergy and Infectious Diseases; National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; U.S. Department of Health and Human Services; National Institutes of Health; National Science Foundation","keywords":"Effector; Legionella pneumophila; Biology; Computational biology; Secretion; Legionella; Cell biology; Genetics; Bacteria; Biochemistry","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":[0.0003747334,0.001009329,0.0007597784,0.004355658,0.0005738321,0.0007762534,0.0003701958,0.0005011074,0.002265721],"category_scores_gemma":[0.0006715373,0.0002326418,0.0008155315,0.004184199,0.0002004723,0.0005516954,0.0007353289,0.0004130492,0.001639185],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004147625,"about_ca_system_score_gemma":0.0004911866,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007283752,"about_ca_topic_score_gemma":0.001288073,"domain_scores_codex":[0.9997091,0.00003630671,0.00003639532,0.0001068782,0.00007019482,0.0000411314],"domain_scores_gemma":[0.9995534,0.0001186781,0.0001013116,0.00006679862,0.00007053476,0.00008930556],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.003541457,0.0003613208,0.1633678,0.005384796,0.0009774227,0.002125872,0.0006419139,0.02194395,0.6497393,0.004062057,0.02553156,0.1223226],"study_design_scores_gemma":[0.0001926198,0.0008883339,0.5304943,0.000621683,0.001584422,0.006283169,0.0007382823,0.05439264,0.1901868,0.007111047,0.2072416,0.0002652466],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7777901,0.009749915,0.01474108,0.0001594701,0.00003750716,0.0000584641,0.1884589,0.004159293,0.00484513],"genre_scores_gemma":[0.5640604,0.004208094,0.03494462,0.00008707358,0.00002187985,0.0001077443,0.3949442,0.0003938358,0.001232205],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004355658,"threshold_uncertainty_score":0.007579565,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009194980547396432,"score_gpt":0.2611291454157909,"score_spread":0.2519341648683944,"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."}}