{"id":"W3118440642","doi":"10.7717/peerj.10420","title":"A SMRT approach for targeted amplicon sequencing of museum specimens (Lepidoptera)—patterns of nucleotide misincorporation","year":2021,"lang":"en","type":"article","venue":"PeerJ","topic":"Lepidoptera: Biology and Taxonomy","field":"Biochemistry, Genetics and Molecular Biology","cited_by":27,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph","funders":"Natural Sciences and Engineering Research Council of Canada; Canada First Research Excellence Fund","keywords":"Biology; Sanger sequencing; Contig; Amplicon; Genetics; Shotgun sequencing; DNA sequencing; Sequence (biology); Massive parallel sequencing; Computational biology; Metagenomics; Consensus sequence; Sequence analysis; Evolutionary biology; DNA; Polymerase chain reaction; Gene; Genome; Base sequence","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":[0.001068602,0.0008595237,0.0005480664,0.002066281,0.0006563581,0.0006409776,0.0006507725,0.0006543027,0.001407325],"category_scores_gemma":[0.001838326,0.0006021156,0.0008830303,0.001145261,0.0004780393,0.0003291882,0.0005353785,0.0009714137,0.002331084],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002759189,"about_ca_system_score_gemma":0.00054711,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007230438,"about_ca_topic_score_gemma":0.002553168,"domain_scores_codex":[0.9985076,0.0002934676,0.0001570772,0.0005245924,0.0004434382,0.00007388831],"domain_scores_gemma":[0.9993048,0.0001479798,0.0002090829,0.0001402538,0.0001600305,0.00003788811],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00004709826,0.00003263611,0.001379381,0.000163943,0.00003079305,0.000112522,0.0001543905,0.000166601,0.9775661,0.000196497,0.0002902438,0.01985987],"study_design_scores_gemma":[0.00001281466,0.0004829502,0.01500652,0.00009408755,0.0001256857,0.001886107,0.0001516576,0.0109184,0.9536275,0.0003417045,0.01731109,0.00004134354],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.2538764,0.002026327,0.7294825,0.0001992751,0.0001347098,0.0009112283,0.003414204,0.004838064,0.005117378],"genre_scores_gemma":[0.1989254,0.001677448,0.7890957,0.0002271214,0.00002985846,0.0008347718,0.0041118,0.0007183516,0.004379527],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.002066281,"threshold_uncertainty_score":0.005651414,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02562111419987643,"score_gpt":0.2432270867988035,"score_spread":0.2176059725989271,"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."}}