{"id":"W2572935401","doi":"10.1186/s12864-017-3489-9","title":"Medium throughput bisulfite sequencing for accurate detection of 5-methylcytosine and 5-hydroxymethylcytosine","year":2017,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":37,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University and Génome Québec Innovation Centre; Douglas Mental Health University Institute; McGill University","funders":"Canadian Institutes of Health Research; National Institutes of Health; Fondation Bettencourt Schueller; Fondation pour la Recherche Médicale; National Institute on Drug Abuse; Fondation Fyssen; Canada Research Chairs; Fondation Pierre Deniker pour la Recherche et la Prévention en Santé Mentale; Scottish Rite Charitable Foundation of Canada; American Foundation for Suicide Prevention","keywords":"Bisulfite; Bisulfite sequencing; 5-Methylcytosine; DNA methylation; Biology; Methylated DNA immunoprecipitation; 5-Hydroxymethylcytosine; Computational biology; Epigenetics; DNA; DNA microarray; genomic DNA; DNA nanoball sequencing; DNA sequencing; Sequencing by ligation; Genome; Cytosine; Illumina Methylation Assay; Genetics; Gene; Genomic library; Base sequence; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001491311,0.001083261,0.0005908493,0.001409251,0.0004675459,0.0005699443,0.0007685591,0.0008589546,0.001696994],"category_scores_gemma":[0.001978536,0.000519919,0.0006142331,0.0007515086,0.0003640724,0.0003680193,0.0006422024,0.001149003,0.0009188662],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005572764,"about_ca_system_score_gemma":0.0009118359,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001243516,"about_ca_topic_score_gemma":0.005096227,"domain_scores_codex":[0.9984558,0.0004280408,0.00009446807,0.0004169876,0.0005348924,0.00006985676],"domain_scores_gemma":[0.9992996,0.0002036672,0.0001325907,0.0001024856,0.0002071189,0.0000544859],"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":[0.0001672859,0.0000419139,0.001360142,0.0002108769,0.0000954873,0.00004841886,0.00009303725,0.0009440964,0.9740761,0.0006218916,0.0005621631,0.02177856],"study_design_scores_gemma":[0.00003255482,0.0003719794,0.006745287,0.00004368348,0.000134331,0.0002938099,0.00003905103,0.02238098,0.9481809,0.001011813,0.02071951,0.00004612162],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.1866657,0.005309003,0.7945285,0.0003473012,0.0002288958,0.0007376949,0.005906675,0.003142096,0.003134188],"genre_scores_gemma":[0.2432992,0.002580201,0.7404737,0.0003564259,0.00006300802,0.00100642,0.007833451,0.0002973027,0.004090247],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.001696994,"threshold_uncertainty_score":0.007886887,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03762992640890085,"score_gpt":0.2965026454378771,"score_spread":0.2588727190289763,"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."}}