{"id":"W2022380179","doi":"10.1371/journal.pone.0089676","title":"Palindromic Sequence Artifacts Generated during Next Generation Sequencing Library Preparation from Historic and Ancient DNA","year":2014,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Environmental DNA in Biodiversity Studies","field":"Environmental Science","cited_by":32,"is_retracted":false,"has_abstract":true,"ca_institutions":"Fisheries and Oceans Canada","funders":"Norges Forskningsråd; Universitetet i Oslo; Norwegian Sequencing Centre","keywords":"Palindrome; DNA sequencing; DNA; Palindromic sequence; Sequence (biology); Computational biology; Biology; Ancient DNA; Genetics; Genome; Gene","routes":{"ca_aff":true,"ca_fund":false,"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":[0.00007789737,0.0001498621,0.0001531204,0.00002815474,0.0003277572,0.00006380902,0.0001149337,0.00006449754,0.0005444844],"category_scores_gemma":[0.00002846321,0.000160484,0.00001956828,0.0001021964,0.0001086743,0.0007784382,0.0002497185,0.00008520806,0.0005218264],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005552613,"about_ca_system_score_gemma":0.000003924769,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002133948,"about_ca_topic_score_gemma":0.00004161366,"domain_scores_codex":[0.9987657,0.00007202428,0.0001778012,0.000448044,0.0003253578,0.0002110787],"domain_scores_gemma":[0.9995605,0.0000235397,0.00009569491,0.0002171303,0.000003097903,0.0001000075],"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":[0.000008802731,0.00007723372,0.1357091,0.000008158185,0.00002091717,0.000002735629,0.0005488284,0.0003678601,0.8629446,0.0000018254,0.0001730578,0.0001368628],"study_design_scores_gemma":[0.0002243671,0.00006906519,0.231391,0.00002563458,0.00005114615,0.000001326503,0.00004042033,0.0176956,0.7501512,0.00003504942,0.00009656169,0.0002186303],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998835,0.0001133018,0.00003508037,0.0001080175,0.00005660342,0.0002251781,0.00001446805,0.00008307816,0.0005292585],"genre_scores_gemma":[0.9886636,0.0001716064,0.01039972,0.0002342735,0.0001002946,0.00001501175,0.000067236,0.00001287956,0.0003353832],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1127934,"threshold_uncertainty_score":0.6707197,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08204906565726823,"score_gpt":0.194891779639603,"score_spread":0.1128427139823347,"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."}}