{"id":"W2143063533","doi":"10.1186/gb-2009-10-9-r94","title":"De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data","year":2009,"lang":"en","type":"article","venue":"Genome biology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":157,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; Natural Resources Canada; BC Cancer Agency; University of British Columbia","funders":"BC Cancer Agency; Genome Alberta; Natural Sciences and Engineering Research Council of Canada; Natural Resources Canada; Universität Bielefeld; Genome British Columbia; Canada's Michael Smith Genome Sciences Centre","keywords":"Sanger sequencing; Sequence assembly; Genome; Biology; Whole genome sequencing; Computational biology; Hybrid genome assembly; Illumina dye sequencing; Sequence (biology); Genetics; DNA sequencing; Gene; Transcriptome","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":[0.0002659819,0.0002079467,0.0002837252,0.00005466481,0.00009276392,0.00001483825,0.0004825855,0.0001850627,0.000009850165],"category_scores_gemma":[0.0000617321,0.0002030283,0.00004408522,0.00008553281,0.000256308,0.00000207819,0.0004156934,0.00007287047,0.000001676156],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002975022,"about_ca_system_score_gemma":0.0001329866,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007698715,"about_ca_topic_score_gemma":0.00001954937,"domain_scores_codex":[0.9985912,0.00007204733,0.0002779998,0.0005800798,0.00005443164,0.0004242116],"domain_scores_gemma":[0.9989677,0.00001756877,0.0001475111,0.0006975225,0.00007563689,0.0000940387],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00003661777,0.00002811927,0.001730726,0.00001425416,0.00007186711,0.000008533619,0.0001073877,0.00004275639,0.9945896,0.00008002407,0.00001352058,0.003276579],"study_design_scores_gemma":[0.004156081,0.00819594,0.3120817,0.00007743206,0.0005834801,0.002469126,0.0008394656,0.001845067,0.3087333,0.003084301,0.354402,0.003532161],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.982594,0.01534451,0.0008717705,0.00007084695,0.0001004357,0.0001763927,0.0006051764,0.000004766319,0.0002320792],"genre_scores_gemma":[0.9903043,0.002442617,0.006245557,0.0004039198,0.0001927962,0.000004227506,0.0003118111,0.00001463867,0.00008012155],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6858563,"threshold_uncertainty_score":0.8279253,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07251461021771309,"score_gpt":0.3174652203634228,"score_spread":0.2449506101457097,"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."}}