{"id":"W2951311618","doi":"10.1186/s13072-018-0209-x","title":"HAM-TBS: high-accuracy methylation measurements via targeted bisulfite sequencing","year":2018,"lang":"en","type":"article","venue":"Epigenetics & Chromatin","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":51,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Children's Hospital; Simon Fraser University","funders":"Canadian Institutes of Health Research; FP7 Ideas: European Research Council; Bundesministerium für Bildung und Forschung","keywords":"Bisulfite sequencing; DNA methylation; Epigenetics; Methylation; Biology; Computational biology; Locus (genetics); Genetics; Illumina Methylation Assay; DNA sequencing; DNA; Gene; Gene expression","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0007372587,0.0003693077,0.0002867484,0.0001347756,0.0003137297,0.00008672761,0.0003450705,0.0003135553,0.0001775773],"category_scores_gemma":[0.0005112955,0.0003860431,0.0001273075,0.000321782,0.0001675395,0.00001390525,0.000163975,0.0001304121,0.0001555637],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009800217,"about_ca_system_score_gemma":0.0001750874,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001344612,"about_ca_topic_score_gemma":0.0001280487,"domain_scores_codex":[0.997366,0.0002508995,0.0006641231,0.0006813937,0.0005055477,0.0005320059],"domain_scores_gemma":[0.9981013,0.00004376883,0.0003739276,0.0007846045,0.0005001427,0.0001962504],"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":[0.00003015774,0.0000465067,0.002043641,0.00002112799,0.00008185203,0.000001404741,0.000163268,0.0003855593,0.9857172,0.0000222158,0.0003761542,0.01111088],"study_design_scores_gemma":[0.0006377214,0.0005731614,0.01347156,0.00003022266,0.00004843771,0.000002511447,0.00003195273,0.001212702,0.971724,0.0007842127,0.0110281,0.0004554035],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.924152,0.002161703,0.07075272,0.0001159154,0.0006674976,0.0004270321,0.00002561121,0.00005733109,0.001640155],"genre_scores_gemma":[0.9698966,0.0002713459,0.02764927,0.000222835,0.001074611,0.00003808559,0.0004040994,0.00008236463,0.0003608602],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0457445,"threshold_uncertainty_score":0.9998592,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02982937038260816,"score_gpt":0.2837394043531995,"score_spread":0.2539100339705914,"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."}}