{"id":"W3021110573","doi":"10.1136/sextrans-2019-sti.712","title":"P644 Analyzing the genomes of<i>neisseria gonorrhoeae</i>isolates using a novel integrated bioinformatic pipeline: Gen2Epi","year":2019,"lang":"en","type":"article","venue":"Poster presentations","topic":"Reproductive tract infections research","field":"Immunology and Microbiology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Saskatchewan Health Authority; Regina Qu'Appelle Health Region; University of Saskatchewan","funders":"","keywords":"Neisseria gonorrhoeae; Multilocus sequence typing; Biology; Cefixime; Tetracycline; Neisseria; Microbiology; Genome; Lincosamides; Genetics; Antibiotic resistance; Cephalosporin; Gene; Genotype; Antibiotics; Bacteria","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0003338997,0.000155982,0.0002276102,0.0003264856,0.000240597,0.00005549928,0.0003049856,0.00009197928,0.001107248],"category_scores_gemma":[0.0001642608,0.0001092428,0.000119923,0.0006954111,0.0002070026,0.000399374,0.0001338098,0.0003245187,0.0007123468],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000398295,"about_ca_system_score_gemma":0.0001293494,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005893209,"about_ca_topic_score_gemma":0.00003331211,"domain_scores_codex":[0.9988058,0.0001738079,0.0004588721,0.0002330108,0.00002300133,0.0003055704],"domain_scores_gemma":[0.9985275,0.0003618807,0.0001874563,0.0005615844,0.0003422719,0.00001926259],"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":[0.0000560009,0.0001329795,0.05707215,0.00004369273,0.0003115383,5.504029e-8,0.00225879,0.0008300103,0.937417,0.0002178226,0.0002446602,0.001415299],"study_design_scores_gemma":[0.007075679,0.000757282,0.4123388,0.0002853569,0.0009293326,0.00112283,0.02432667,0.01339017,0.4761172,0.0007681007,0.06122494,0.001663694],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9899883,0.001181323,0.004474539,0.0003473357,0.0004876738,0.000798705,0.00006612163,0.00004980369,0.00260618],"genre_scores_gemma":[0.9969641,0.00004473447,0.0005294501,0.00003260613,0.00002509756,0.0000307201,0.0001391045,0.00001873112,0.002215477],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4612998,"threshold_uncertainty_score":0.9998059,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03067885864386844,"score_gpt":0.3091360603318083,"score_spread":0.2784572016879399,"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."}}