{"id":"W2990822156","doi":"10.3389/fgene.2019.01192","title":"LD-annot: A Bioinformatics Tool to Automatically Provide Candidate SNPs With Annotations for Genetically Linked Genes","year":2019,"lang":"en","type":"article","venue":"Frontiers in Genetics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":16,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph; Centre hospitalier universitaire de Québec; Université Laval","funders":"Natural Resources Canada; Genome British Columbia; Canadian Food Inspection Agency; Genome Canada","keywords":"Single-nucleotide polymorphism; Gene; Genetics; Biology; Computational biology; Computer science; Candidate gene; Bioinformatics; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.003867405,0.002820213,0.001863692,0.004578169,0.001727695,0.002072556,0.00313801,0.001430014,0.02884044],"category_scores_gemma":[0.008312586,0.001669197,0.002168226,0.00308118,0.000648976,0.002004254,0.002745735,0.002392447,0.01677724],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001175113,"about_ca_system_score_gemma":0.00249301,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004196961,"about_ca_topic_score_gemma":0.006973229,"domain_scores_codex":[0.9985863,0.0003163001,0.0001297949,0.0005412964,0.0003159769,0.0001104723],"domain_scores_gemma":[0.9960839,0.002342659,0.0004096087,0.0005174232,0.0004522289,0.000194153],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00268971,0.0005365775,0.01496312,0.00364267,0.0007459633,0.001390037,0.001522325,0.01214759,0.04173051,0.01145393,0.649621,0.2595566],"study_design_scores_gemma":[0.00223094,0.0004807763,0.02675007,0.0006888211,0.0004534446,0.001679042,0.0007371221,0.1905549,0.07633475,0.04943249,0.6499999,0.0006577687],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.006761586,0.0003741744,0.4310648,0.0004045407,0.0002541886,0.0003857812,0.1372357,0.418948,0.004571322],"genre_scores_gemma":[0.03180541,0.0004322015,0.7269279,0.0007176545,0.0001155028,0.00239157,0.1983833,0.03398726,0.005239161],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.02884044,"threshold_uncertainty_score":0.09648091,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005746505884505743,"score_gpt":0.2235873805613639,"score_spread":0.2178408746768582,"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."}}