{"id":"W2142755679","doi":"10.1128/jcm.02031-07","title":"Sequence Polymorphisms in a Surface PPE Protein Distinguish Types I, II, and III of <i>Mycobacterium avium</i> subsp. <i>paratuberculosis</i>","year":2008,"lang":"en","type":"article","venue":"Journal of Clinical Microbiology","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":30,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"Crohn's and Colitis Foundation of Canada; Faculty of Veterinary Medicine, University of Calgary; Crohn's and Colitis Foundation","keywords":"Paratuberculosis; Biology; Locus (genetics); Typing; Mycobacterium; Genetics; Gene; Microbiology; Nucleic acid sequence; Single-nucleotide polymorphism; Genotype; Bacteria","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":[0.001497619,0.0001959557,0.001308974,0.0001305481,0.00005888729,0.000007230073,0.0002068028,0.0003318655,0.0001293035],"category_scores_gemma":[0.002528964,0.0001462946,0.00027069,0.0002516394,0.0007016225,0.0001002856,0.0001510163,0.0008697362,0.000007915663],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003897202,"about_ca_system_score_gemma":0.0005214,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000128489,"about_ca_topic_score_gemma":0.00003796655,"domain_scores_codex":[0.9969701,0.0003715299,0.001828206,0.0002844261,0.0001318251,0.0004139537],"domain_scores_gemma":[0.9974229,0.0007556161,0.0007806213,0.0002476052,0.0004454685,0.0003477708],"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":[0.001726308,0.0005207129,0.4158242,0.00005822776,0.00008325585,0.0003684944,0.00009098028,9.21858e-7,0.5784253,0.00001632868,0.002553344,0.0003320014],"study_design_scores_gemma":[0.01824504,0.01517287,0.7105635,0.002067705,0.0003231833,0.01357226,0.00007681057,0.00002435321,0.2033602,0.0002437595,0.03567303,0.0006773385],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9948692,0.001835447,0.000005769722,0.002329013,0.0002973502,0.0003017768,0.00004880414,0.000008161848,0.0003044329],"genre_scores_gemma":[0.9952407,0.002156735,0.001329409,0.0006606357,0.0003157205,0.000003223906,0.00001375798,0.00001664496,0.0002631971],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3750651,"threshold_uncertainty_score":0.5965721,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0599509477736142,"score_gpt":0.3562958641112376,"score_spread":0.2963449163376234,"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."}}