{"id":"W2163295736","doi":"10.1371/journal.pone.0015406","title":"Microbiome Profiling by Illumina Sequencing of Combinatorial Sequence-Tagged PCR Products","year":2010,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":337,"is_retracted":false,"has_abstract":true,"ca_institutions":"Lawson Health Research Institute; Western University","funders":"Natural Sciences and Engineering Research Council of Canada; University of Toronto","keywords":"Biology; Computational biology; Illumina dye sequencing; Genetics; Microbiome; DNA sequencing; Sequence analysis; Deep sequencing; Ribosomal RNA; Pyrosequencing; Gene; Genome","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":[0.0001752756,0.0001469432,0.0002167709,0.00002846636,0.00007399766,0.00001082766,0.0001945175,0.0001309835,0.000006600776],"category_scores_gemma":[0.0001642974,0.0001476903,0.00004334624,0.00008757842,0.0001660285,0.000001010584,0.0001176642,0.0001276853,0.000004457636],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001208311,"about_ca_system_score_gemma":0.0001181979,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002565635,"about_ca_topic_score_gemma":0.000006108397,"domain_scores_codex":[0.9990547,0.00002477803,0.0002253646,0.000335544,0.0001272619,0.0002323315],"domain_scores_gemma":[0.9992259,0.00000922756,0.0001218924,0.0003548744,0.0002372194,0.00005090665],"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":[0.00002755592,0.0002378454,0.002242917,0.00009118684,0.0001654082,6.899051e-7,0.00008061799,5.88906e-7,0.9967977,0.000113117,0.0001767626,0.00006559354],"study_design_scores_gemma":[0.0003842882,0.0002049288,0.0001572252,0.00001967573,0.00005090283,0.000002945154,0.00004666518,0.000008162056,0.9980208,0.0001403543,0.0007888862,0.0001751908],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9982378,0.0004886503,0.000004112464,0.0001133901,0.000283222,0.0002959014,0.00009376318,0.000005575061,0.0004775581],"genre_scores_gemma":[0.9931404,0.000101204,0.005994043,0.000038865,0.0003385554,0.00002254234,0.00009116466,0.00002349986,0.0002497154],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.005989931,"threshold_uncertainty_score":0.6022637,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02998932866958393,"score_gpt":0.2206794893985947,"score_spread":0.1906901607290108,"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."}}