{"id":"W4406154248","doi":"10.1128/msystems.01413-24","title":"Targeted sequencing of <i>Enterobacterales</i> bacteria using CRISPR-Cas9 enrichment and Oxford Nanopore Technologies","year":2025,"lang":"en","type":"article","venue":"mSystems","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":14,"is_retracted":false,"has_abstract":true,"ca_institutions":"Impact","funders":"Australian Research Data Commons; Bill and Melinda Gates Foundation","keywords":"CRISPR; Nanopore sequencing; Minion; Multilocus sequence typing; Biology; Klebsiella pneumoniae; DNA sequencing; Gene; Locus (genetics); Cas9; Genetics; Metagenomics; Computational biology; Plasmid; Illumina dye sequencing; Escherichia coli; Genotype","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":[0.0002506397,0.0001827767,0.0004917061,0.0003096341,0.0000822095,0.00004555133,0.0001193936,0.0001444701,0.00004803232],"category_scores_gemma":[0.0001880841,0.0001493544,0.00007728929,0.000346943,0.0001058882,0.00009318227,0.0001799109,0.000158183,0.000003144061],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001965503,"about_ca_system_score_gemma":0.0001027085,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002816626,"about_ca_topic_score_gemma":0.00001648662,"domain_scores_codex":[0.9985826,0.00005999501,0.0004401138,0.0003016381,0.0002257172,0.0003899328],"domain_scores_gemma":[0.9991937,0.00007769652,0.0001232582,0.000389134,0.0001293586,0.00008690942],"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":[0.0001050264,0.00007269931,0.2374201,0.001882165,0.0001453705,0.00005387222,0.0001668595,0.000001071258,0.7560702,0.0001747026,0.002285344,0.001622625],"study_design_scores_gemma":[0.005177378,0.001083507,0.06201871,0.00822094,0.0004117528,0.0003267274,0.005198067,0.002786042,0.8475283,0.0001821165,0.06639837,0.0006680636],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9940597,0.00275458,0.0002097525,0.0006180526,0.0002939668,0.0006202503,0.00003540674,0.0001466883,0.001261636],"genre_scores_gemma":[0.9978213,0.0005511144,0.001003502,0.0001192412,0.00003890159,0.00004683623,0.00002189199,0.00001478659,0.0003824423],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1754014,"threshold_uncertainty_score":0.6090496,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02405032634392817,"score_gpt":0.2998692965237712,"score_spread":0.275818970179843,"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."}}