{"id":"W4285799853","doi":"10.1101/2022.07.15.500259","title":"Cell Type Specific DNA Signatures of Transcription Factor Binding","year":2022,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ottawa Hospital; University of Ottawa","funders":"Natural Sciences and Engineering Research Council of Canada; Compute Canada","keywords":"Transcription factor; CTCF; Biology; Cell type; Chromatin; DNA; Computational biology; Cell; Genetics; Binding site; DNA binding site; Gene; Gene expression; Enhancer; Promoter","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":[0.0002438452,0.0001801604,0.0003457242,0.001109636,0.0001552252,0.0004134706,0.0002003263,0.0004486043,0.00169143],"category_scores_gemma":[0.0006196112,0.0001708415,0.000254854,0.0005609631,0.0002714922,0.0002154953,0.0003362271,0.0004016642,0.0005456939],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002407549,"about_ca_system_score_gemma":0.0001261039,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008818645,"about_ca_topic_score_gemma":0.001506389,"domain_scores_codex":[0.9997445,0.00002294822,0.00001306907,0.0000916039,0.00006628924,0.00006165193],"domain_scores_gemma":[0.9992805,0.0002170291,0.0001558818,0.00008901847,0.0001600243,0.00009758807],"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":[0.000140269,0.00001466948,0.02716234,0.00005888091,0.00002867288,0.00004014219,0.00003341375,0.0006005624,0.964189,0.0001254729,0.0001404546,0.007466247],"study_design_scores_gemma":[0.00001024214,0.0001415096,0.4448631,0.00001734651,0.0000726086,0.0007058717,0.0001589509,0.01372504,0.5369142,0.0007110627,0.002646606,0.00003346721],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9781345,0.0008981554,0.0174381,0.00004224311,0.00001398541,0.0000138171,0.001652221,0.0002889161,0.001518172],"genre_scores_gemma":[0.991933,0.0001632902,0.005558106,0.00006075059,0.000006081699,0.00002185856,0.001433868,0.0000392352,0.0007838432],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00169143,"threshold_uncertainty_score":0.005658388,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01081715121376679,"score_gpt":0.2027317319968351,"score_spread":0.1919145807830683,"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."}}