{"id":"W2008153500","doi":"10.1371/journal.pone.0031597","title":"Winnowing DNA for Rare Sequences: Highly Specific Sequence and Methylation Based Enrichment","year":2012,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"Collège Boréal; University of British Columbia","funders":"National Human Genome Research Institute; Genome British Columbia; Canada's Michael Smith Genome Sciences Centre","keywords":"DNA methylation; DNA; Biology; Oligonucleotide; DNA sequencing; 5-Methylcytosine; Molecular biology; Cytosine; Sequencing by ligation; Genetics; DNA nanoball sequencing; Methylated DNA immunoprecipitation; Methylation; 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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001537646,0.0000942875,0.000103923,0.00002552155,0.00006699732,0.00002536327,0.0000634012,0.00006892133,0.000009660437],"category_scores_gemma":[0.00007637973,0.00009725957,0.0000303156,0.00004339801,0.0000412295,0.000006433909,0.00003194174,0.00003164921,0.000003123029],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003105665,"about_ca_system_score_gemma":0.00004238389,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00000723178,"about_ca_topic_score_gemma":0.000004092711,"domain_scores_codex":[0.9993763,0.00001624651,0.0001242926,0.0001907934,0.00009429366,0.0001981052],"domain_scores_gemma":[0.9995812,0.00004735204,0.00005225362,0.0001700865,0.00006879214,0.00008026836],"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":[0.00003326306,0.0001403499,0.004337861,0.00004769525,0.00004257183,2.961619e-7,0.00004536794,0.00001806761,0.9938274,0.0003814789,0.0002343941,0.0008912581],"study_design_scores_gemma":[0.0004461845,0.000174177,0.00120613,0.00003323548,0.00005185839,7.184941e-7,0.00003117171,0.0002558881,0.9834726,0.0001452321,0.01401114,0.000171617],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9899227,0.003266242,0.005776902,0.0002937663,0.00008600902,0.0003212855,0.0000861216,0.000009856564,0.0002370967],"genre_scores_gemma":[0.9854033,0.0004776935,0.012937,0.0003348055,0.0004672245,0.00006413959,0.0002228843,0.00001521579,0.00007776243],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01377675,"threshold_uncertainty_score":0.396613,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05745072480653861,"score_gpt":0.2567893694832054,"score_spread":0.1993386446766667,"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."}}