{"id":"W2158392977","doi":"10.1371/journal.pone.0076957","title":"Transcriptome-Mining for Single-Copy Nuclear Markers in Ferns","year":2013,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Fern and Epiphyte Biology","field":"Agricultural and Biological Sciences","cited_by":72,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta; University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada; Genome Alberta; Alberta Innovates; Svenska Forskningsrådet Formas; Western Canada Research Grid; National Science Foundation; Vetenskapsrådet; Compute Canada","keywords":"Biology; Fern; Phylogenetic tree; Phylogenetics; Nuclear gene; Evolutionary biology; Genomics; Phylogenomics; Clade; Genetics; DNA sequencing; Genome; Gene; Botany","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":[0.00007841342,0.00008224656,0.0001560644,0.000009954378,0.00005848151,0.00003050765,0.0001382635,0.0000871567,0.0008495617],"category_scores_gemma":[0.00004070465,0.00003338969,0.00004825712,0.0001042879,0.00003245072,0.00007934112,0.00001499374,0.00005531956,0.0001106571],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001955337,"about_ca_system_score_gemma":0.000001577322,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002024488,"about_ca_topic_score_gemma":0.0002196978,"domain_scores_codex":[0.9993111,0.00002710691,0.0001338078,0.0001850918,0.0000754245,0.0002674153],"domain_scores_gemma":[0.9997554,0.0000992136,0.00002661328,0.00003034337,0.00002840776,0.0000600687],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00004656438,0.0003958982,0.009929465,0.00001035741,0.00001646182,5.006292e-7,0.00009135564,7.181106e-8,0.9738927,0.0000536912,0.0005432282,0.01501965],"study_design_scores_gemma":[0.001596017,0.004155749,0.9049866,0.0003390287,0.00007279638,0.000004073028,0.002423192,0.001406096,0.05887887,0.001511388,0.02358193,0.001044228],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9940231,0.00004968949,4.408209e-7,0.002211544,0.00004157776,0.0003040296,0.00001309008,0.00005094771,0.00330562],"genre_scores_gemma":[0.9982922,0.00001942396,0.0006170419,0.0004963552,0.0001359643,0.00004398731,0.00002058307,0.000001278893,0.0003731513],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9150139,"threshold_uncertainty_score":0.9302105,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07314059566563304,"score_gpt":0.2009793139760902,"score_spread":0.1278387183104572,"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."}}