{"id":"W2883298629","doi":"10.1038/sdata.2018.141","title":"MANTA2, update of the Mongo database for the analysis of transcription factor binding site alterations","year":2018,"lang":"en","type":"article","venue":"Scientific Data","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Children's Hospital; University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada; Norges Forskningsråd; Universitetet i Oslo; European Molecular Biology Laboratory; Western Canada Research Grid; Weston Brain Institute; BC Children's Hospital; Children's Hospital Foundation; Compute Canada; Canadian Institutes of Health Research; Genome Canada","keywords":"DNA binding site; Genome; Binding site; Biology; Transcription factor; 1000 Genomes Project; Computational biology; Genetics; Database; Single-nucleotide polymorphism; Computer science; Gene; Promoter; Gene expression; Genotype","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":[0.003107289,0.002071114,0.002485508,0.007282593,0.0009646018,0.00351292,0.004231828,0.001452768,0.01996356],"category_scores_gemma":[0.008966248,0.00130018,0.002243046,0.006189994,0.0004344275,0.002039319,0.00252209,0.001791995,0.01506798],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006927533,"about_ca_system_score_gemma":0.002450966,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003204114,"about_ca_topic_score_gemma":0.004039037,"domain_scores_codex":[0.9985929,0.0002388856,0.0002997057,0.0003394576,0.0004096507,0.0001194076],"domain_scores_gemma":[0.9964185,0.001193395,0.0006187247,0.0008218319,0.0004389914,0.0005085081],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.006658642,0.0004266292,0.04478595,0.01054371,0.002282222,0.002221491,0.001258692,0.007280979,0.05556099,0.01610127,0.6073067,0.2455727],"study_design_scores_gemma":[0.0005696198,0.000222432,0.02260073,0.000601672,0.0007997963,0.002312167,0.0002548537,0.01497041,0.01582976,0.01674297,0.9248027,0.0002928731],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.03281251,0.008882145,0.07264807,0.0009601549,0.000739237,0.0003156234,0.7274336,0.1440542,0.01215453],"genre_scores_gemma":[0.04520654,0.003444705,0.101227,0.0006207294,0.0002061748,0.0009721494,0.8270674,0.01619972,0.005055613],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.01996356,"threshold_uncertainty_score":0.0667848,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03316037739362557,"score_gpt":0.2848577802092167,"score_spread":0.2516974028155911,"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."}}