{"id":"W3027640674","doi":"10.1101/2020.05.20.105379","title":"Massively multiplex single-molecule oligonucleosome footprinting","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Vector Institute","funders":"","keywords":"Nucleosome; Chromatin; Footprinting; Computational biology; Epigenomics; Biology; Constitutive heterochromatin; DNA footprinting; Genetics; DNA; Transcription factor; Heterochromatin; Base sequence; Gene; DNA-binding protein; DNA methylation","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0008042051,0.0005140491,0.0004321874,0.0006273719,0.0002283662,0.0005435738,0.0005945729,0.0003547027,0.005243498],"category_scores_gemma":[0.0005891448,0.0003103651,0.000283718,0.0003030633,0.0003198311,0.0003317097,0.0004566738,0.0007357814,0.0022804],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002623343,"about_ca_system_score_gemma":0.0002043256,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002391632,"about_ca_topic_score_gemma":0.0006799806,"domain_scores_codex":[0.9993556,0.0001047781,0.00003321289,0.0002321276,0.00022753,0.00004673849],"domain_scores_gemma":[0.9995003,0.0001844663,0.00008360148,0.00009865149,0.00006533351,0.00006764349],"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":[0.0001480559,0.00004644559,0.0005620933,0.0001459226,0.00002952552,0.00003510401,0.00003280552,0.001043745,0.973583,0.0009859421,0.001072043,0.02231535],"study_design_scores_gemma":[0.00002050215,0.0001522065,0.001326082,0.000009839063,0.00001508628,0.00009442183,0.00001271413,0.01451497,0.973153,0.0007166507,0.009957147,0.00002740781],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.2399887,0.002112595,0.7343099,0.0004610018,0.0003975752,0.0004823371,0.00780918,0.009224161,0.005214692],"genre_scores_gemma":[0.4502644,0.0008429181,0.5340088,0.0003053779,0.0001157931,0.000744523,0.004817507,0.0002385148,0.00866217],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.005243498,"threshold_uncertainty_score":0.01754129,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01368035671903353,"score_gpt":0.2070354495965309,"score_spread":0.1933550928774974,"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."}}