{"id":"W2146890600","doi":"10.1186/s13059-014-0412-4","title":"Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets","year":2014,"lang":"en","type":"article","venue":"Genome biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":75,"is_retracted":false,"has_abstract":true,"ca_institutions":"Child and Family Research Institute; University of British Columbia","funders":"National Institute of General Medical Sciences; Natural Sciences and Engineering Research Council of Canada; Genome Canada; Canadian Institutes of Health Research; National Institutes of Health; Michael Smith Health Research BC","keywords":"Biology; Human genetics; Computational biology; Transcription factor; Genetics; Component (thermodynamics); RNA-Seq; Evolutionary biology; Bioinformatics; Gene; Transcriptome; 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":[0.007272407,0.001313772,0.00164619,0.002475139,0.001159092,0.00191608,0.001887493,0.00113847,0.005293271],"category_scores_gemma":[0.01818956,0.0007876273,0.001590909,0.005031027,0.0007503372,0.001046268,0.001582833,0.001706929,0.003949207],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000983151,"about_ca_system_score_gemma":0.001708559,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001731551,"about_ca_topic_score_gemma":0.005243162,"domain_scores_codex":[0.9891098,0.001425764,0.001371057,0.004470622,0.003109743,0.0005130618],"domain_scores_gemma":[0.9828078,0.00777988,0.002002366,0.005043916,0.001946294,0.0004198268],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.002474998,0.0004612814,0.3520561,0.009825532,0.006543438,0.0008297754,0.0008429887,0.0238066,0.4239413,0.006311978,0.06064108,0.112265],"study_design_scores_gemma":[0.000267737,0.0003703752,0.5166575,0.0005375598,0.001338294,0.001871054,0.0004380937,0.07576196,0.2449452,0.01374384,0.1437755,0.0002930638],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"dataset","genre_gemma":"empirical","genre_scores_codex":[0.2507263,0.004353201,0.2614623,0.0008353302,0.0005763338,0.001012858,0.4514065,0.02420917,0.005418022],"genre_scores_gemma":[0.3452153,0.001002613,0.1475486,0.001360498,0.0001787044,0.002771657,0.4969586,0.003258276,0.001705905],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.007272407,"threshold_uncertainty_score":0.03846061,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007769302541850975,"score_gpt":0.2093657956430878,"score_spread":0.2015964931012368,"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."}}