{"id":"W2178546947","doi":"10.1186/s13742-015-0098-x","title":"Exemplary multiplex bisulfite amplicon data used to demonstrate the utility of Methpat","year":2015,"lang":"en","type":"article","venue":"GigaScience","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Infection and Immunity; National Health and Medical Research Council; State Government of Victoria; University of Queensland; Queensland University of Technology; La Trobe University; Peter MacCallum Cancer Centre; Victorian Cancer Agency; National Breast Cancer Foundation; University of Melbourne; Cancer Research Institute","keywords":"DNA methylation; Bisulfite sequencing; Illumina Methylation Assay; Bisulfite; Amplicon; Massive parallel sequencing; Biology; Computational biology; Multiplex; Epigenetics; Methylated DNA immunoprecipitation; DNA sequencing; Methylation; Genetics; DNA; Gene; Polymerase chain reaction; Gene expression","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":[0.00131216,0.00009033876,0.00009677414,0.00002695738,0.00006951996,0.00002757934,0.0008204781,0.00005786555,0.00000717685],"category_scores_gemma":[0.0005488116,0.00006500992,0.0000284249,0.000229131,0.0001892234,0.000009184017,0.0004776234,0.00004913266,0.000007491375],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00000399188,"about_ca_system_score_gemma":0.0001378108,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001305144,"about_ca_topic_score_gemma":0.0001637804,"domain_scores_codex":[0.9988884,0.00009241589,0.0001900112,0.0003968025,0.0002437554,0.0001886347],"domain_scores_gemma":[0.9985365,0.00003173423,0.00007782453,0.001097079,0.0001208923,0.0001359444],"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":[0.00002548016,0.00002602211,0.01788951,0.000003370373,0.000005678012,4.338049e-7,0.0001187534,0.00009291315,0.9705914,0.00001282776,0.0006828337,0.01055081],"study_design_scores_gemma":[0.0002351749,0.0001597221,0.05029015,0.000006299201,0.000009984478,0.000001911208,0.0001339823,0.002952774,0.9256773,0.0002718547,0.02013114,0.0001297076],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9754369,0.0005663831,0.02271767,0.000256358,0.0001312962,0.0001948055,0.00006478795,0.000005986847,0.0006257677],"genre_scores_gemma":[0.9957439,0.00003075086,0.003921506,0.000120868,0.00004705843,0.000006030922,0.00005763571,0.000006069407,0.00006617507],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04491408,"threshold_uncertainty_score":0.2651027,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.2228141854584456,"score_gpt":0.3689320310071647,"score_spread":0.1461178455487191,"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."}}