{"id":"W4396803988","doi":"10.3855/jidc.20136","title":"Complete Genome Sequencing, Annotation, and Mutational Profiling of the Novel Clade I Human Mpox Virus, Kamituga Strain","year":2024,"lang":"en","type":"article","venue":"The Journal of Infection in Developing Countries","topic":"Poxvirus research and outbreaks","field":"Immunology and Microbiology","cited_by":44,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Saskatchewan; Dalhousie University","funders":"Canadian Institutes of Health Research","keywords":"Biology; Frameshift mutation; Genetics; Genome; Whole genome sequencing; Clade; Phylogenetic tree; Reference genome; Nonsynonymous substitution; Indel; Gene; Virology; Single-nucleotide polymorphism; Mutation; Genotype","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":[],"consensus_categories":[],"category_scores_codex":[0.001093773,0.00009089278,0.000155531,0.0002052132,0.0002712705,0.00003808192,0.0001297615,0.00008220663,0.00004015158],"category_scores_gemma":[0.0001725429,0.00005445744,0.00004360783,0.0002557395,0.0003569859,0.0001789668,0.000050236,0.0004419987,0.000006595936],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001591272,"about_ca_system_score_gemma":0.0005665125,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002122752,"about_ca_topic_score_gemma":0.0002794868,"domain_scores_codex":[0.9990044,0.0001957122,0.0004557061,0.00007552984,0.0001085592,0.0001600529],"domain_scores_gemma":[0.9991266,0.00031187,0.0002101762,0.00007267429,0.0002680491,0.00001061928],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00009928849,0.00001826039,0.0152675,0.0001833447,0.0002600213,0.000004924495,0.004121365,0.0006377239,0.9553777,0.02365221,0.0002412763,0.0001364045],"study_design_scores_gemma":[0.001211642,0.0001944173,0.8384373,0.0007966736,0.00006901965,0.001853304,0.0004168505,0.00008500651,0.1124881,0.005674047,0.03854773,0.0002259015],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9919617,0.001982301,0.004313937,0.001026191,0.0003978246,0.0001367059,0.00007821235,0.00001136525,0.00009181245],"genre_scores_gemma":[0.9988122,0.0006660084,0.0001820961,0.0001795257,0.00005598749,0.000002920477,0.00001209054,0.000007883287,0.00008128372],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8428896,"threshold_uncertainty_score":0.222071,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03331538751670926,"score_gpt":0.2993479823194783,"score_spread":0.2660325948027691,"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."}}