{"id":"W2802686273","doi":"10.3389/fmicb.2018.00987","title":"A Phylogenomic and Molecular Markers Based Analysis of the Class Acidimicrobiia","year":2018,"lang":"en","type":"article","venue":"Frontiers in Microbiology","topic":"Metal Extraction and Bioleaching","field":"Engineering","cited_by":45,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Chinese Academy of Sciences; Natural Science Foundation of Guangdong Province; National Natural Science Foundation of China; McMaster University","keywords":"Biology; Phylogenetic tree; Metagenomics; Evolutionary biology; Phylogenomics; Computational biology; Phylogenetics; 16S ribosomal RNA; Identification (biology); Genetics; Ribosomal RNA; Taxonomic rank; Gene; Ecology; Clade; Taxon","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001634239,0.00009468439,0.0002269225,0.0002523745,0.000026302,0.00000516923,0.000133592,0.0001037423,0.00003526574],"category_scores_gemma":[0.00001403,0.00007311977,0.00009128705,0.0003960934,0.0001912213,0.000015541,0.00002741321,0.0001226424,0.000001867079],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004095718,"about_ca_system_score_gemma":0.000009860651,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001202158,"about_ca_topic_score_gemma":0.00004884203,"domain_scores_codex":[0.9994329,0.00008303174,0.0001770957,0.0001394833,0.00001514957,0.0001523471],"domain_scores_gemma":[0.999745,0.00001432553,0.00004061857,0.0001679605,0.00001353901,0.00001859978],"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":[0.00001740192,0.000006807316,0.01314957,0.00001074673,0.0002718634,6.110775e-7,0.00004610912,0.0009539262,0.9826382,0.0000124088,0.001739826,0.001152516],"study_design_scores_gemma":[0.001212087,0.00009647472,0.0606681,0.0000423401,0.0007650543,0.00001769104,0.0002842895,0.1471742,0.727915,0.00008672274,0.06119578,0.000542223],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9835043,0.0004509504,0.01468465,0.0000611828,0.0006732207,0.00008316961,0.00002529846,0.00001861036,0.0004985981],"genre_scores_gemma":[0.995684,0.00001613936,0.004001203,0.0002404917,0.00001084795,0.00000202847,0.00001262104,0.000008693635,0.00002401059],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2547232,"threshold_uncertainty_score":0.2981738,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.003436847398662144,"score_gpt":0.1841506912597409,"score_spread":0.1807138438610788,"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."}}