{"id":"W4389546256","doi":"10.1038/s41467-023-43562-y","title":"The Helicobacter pylori Genome Project: insights into H. pylori population structure from analysis of a worldwide collection of complete genomes","year":2023,"lang":"en","type":"article","venue":"Nature Communications","topic":"Helicobacter pylori-related gastroenterology studies","field":"Medicine","cited_by":70,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University; University of Alberta","funders":"Fondo de Financiamiento de Centros de Investigación en Áreas Prioritarias; National Institute of Environmental Health Sciences; National Institute of Diabetes and Digestive and Kidney Diseases; National Institute of Allergy and Infectious Diseases; National Institute of General Medical Sciences; National Cancer Institute; Comisión Nacional de Investigación Científica y Tecnológica; Medical Research Council; Fondo Nacional de Desarrollo Científico y Tecnológico; Centers for Disease Control and Prevention; National Medical Research Council; Alberta Innovates; Fundação de Amparo à Pesquisa do Estado de São Paulo; Institut National Du Cancer; Magnus Bergvalls Stiftelse; National Institutes of Health; National Institute on Minority Health and Health Disparities; Stiftelsen Assar Gabrielssons Fond; Agencia Nacional de Investigación y Desarrollo; Universiti Malaya; Bundesministerium für Bildung und Forschung; Hellenic Society of Gastroenterology; European Commission; Svenska Sällskapet för Medicinsk Forskning; Ministero della Salute; Conselho Nacional de Desenvolvimento Científico e Tecnológico; National Research Foundation; Göteborgs Universitet; U.S. National Library of Medicine; National Research Foundation Singapore; Universidad de Costa Rica; Universidad Científica del Sur; ArcticNet; U.S. Department of Veterans Affairs","keywords":"Helicobacter pylori; Genome; Biology; Pathogenicity island; Population; Genetics; Genomics; Evolutionary biology; Gene; Medicine; Environmental health","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":[0.001613177,0.0007670266,0.001063347,0.003379258,0.0006432012,0.001134959,0.0006294805,0.0007726906,0.002884061],"category_scores_gemma":[0.004263837,0.0004177194,0.0008066365,0.005555797,0.000246448,0.000653977,0.002074882,0.001180701,0.001610679],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004923264,"about_ca_system_score_gemma":0.00111136,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008280361,"about_ca_topic_score_gemma":0.01127663,"domain_scores_codex":[0.99923,0.0001541924,0.00006966833,0.0002816739,0.0001703215,0.00009412605],"domain_scores_gemma":[0.9987599,0.0002820703,0.0002853354,0.0002011113,0.0002516136,0.0002200504],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.002340061,0.0004466002,0.4026753,0.009500799,0.004214334,0.001040718,0.003605531,0.01022024,0.1152905,0.004741746,0.2644953,0.1814288],"study_design_scores_gemma":[0.0003413199,0.0002724339,0.7548224,0.0006535798,0.0006281017,0.0006629529,0.000744098,0.005058829,0.004158768,0.003398513,0.2291334,0.0001257825],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"dataset","genre_gemma":"empirical","genre_scores_codex":[0.2280769,0.006111324,0.007378424,0.0007325138,0.00008807607,0.0001304683,0.7536795,0.0007825502,0.003020282],"genre_scores_gemma":[0.0992428,0.001673185,0.01385138,0.0001589238,0.00003981573,0.0002015979,0.8841144,0.0002398916,0.0004781158],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.008280361,"threshold_uncertainty_score":0.01646435,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02791266094468706,"score_gpt":0.3063036915664105,"score_spread":0.2783910306217234,"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."}}