{"id":"W4389612983","doi":"10.1093/gbe/evad229","title":"Widespread Deviant Patterns of Heterozygosity in Whole-Genome Sequencing Due to Autopolyploidy, Repeated Elements, and Duplication","year":2023,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université du Québec à Rimouski; Université Laval","funders":"Norges Miljø- og Biovitenskapelige Universitet; Genome Canada","keywords":"Biology; Single-nucleotide polymorphism; Genetics; Genome; Population; Genomics; Loss of heterozygosity; Evolutionary biology; Computational biology; Allele; Gene; 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":[0.0002716612,0.0001129977,0.000166417,0.0000877198,0.00007842383,0.000004986381,0.00007088095,0.0001210078,0.000001566252],"category_scores_gemma":[0.00003719156,0.0001125545,0.00002317397,0.000118612,0.00005636385,0.000001427088,0.0001830283,0.00004341623,0.000004312335],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003469358,"about_ca_system_score_gemma":0.00002406837,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000214235,"about_ca_topic_score_gemma":0.000254939,"domain_scores_codex":[0.9991069,0.00005601967,0.0002452162,0.000342417,0.00003088444,0.0002186011],"domain_scores_gemma":[0.9996505,0.00001092011,0.00007457488,0.0001725154,0.0000407033,0.00005078336],"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":[0.00002841843,0.000007368178,0.2211462,0.00001792327,0.00002428465,8.895277e-7,0.000134933,0.00005329312,0.777948,0.00008811994,0.000004684559,0.0005458527],"study_design_scores_gemma":[0.0002775431,0.0002582427,0.9889696,0.00001051499,0.00001047968,0.00001079979,0.0001421954,0.00006855069,0.008266433,0.0004208301,0.001435204,0.0001295911],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9971849,0.001346813,0.0008502303,0.0001725118,0.00006109638,0.0002228771,0.0001361231,0.000006743156,0.0000187138],"genre_scores_gemma":[0.9988283,0.0004876144,0.0002083435,0.00006381247,0.00004850194,0.00003221841,0.0002608112,0.000008143494,0.00006228426],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7696816,"threshold_uncertainty_score":0.458984,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01457993686531019,"score_gpt":0.249069582054561,"score_spread":0.2344896451892508,"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."}}