{"id":"W4307936084","doi":"10.1038/s41467-022-34320-7","title":"A comprehensive Bioconductor ecosystem for the design of CRISPR guide RNAs across nucleases and technologies","year":2022,"lang":"en","type":"article","venue":"Nature Communications","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":65,"is_retracted":false,"has_abstract":true,"ca_institutions":"Roche (Canada)","funders":"","keywords":"CRISPR; Genome editing; Cas9; Computer science; Guide RNA; Computational biology; Bioconductor; Genome engineering; Annotation; Biology; Gene; Genetics","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":[0.008602142,0.005728286,0.005166837,0.005141621,0.001798132,0.005458483,0.009039143,0.003243645,0.08316671],"category_scores_gemma":[0.01759606,0.003862246,0.003652594,0.005325055,0.002058773,0.003429311,0.008178463,0.006078211,0.1163635],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.002183601,"about_ca_system_score_gemma":0.009009157,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00533997,"about_ca_topic_score_gemma":0.004814132,"domain_scores_codex":[0.9943024,0.001172353,0.0007539096,0.001536493,0.001611152,0.0006237828],"domain_scores_gemma":[0.991854,0.002539632,0.001024575,0.002149497,0.001519185,0.0009130604],"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":[0.002250575,0.000230079,0.00348134,0.008683565,0.001684983,0.001067382,0.0008593278,0.007521036,0.01812246,0.02833161,0.8135826,0.1141851],"study_design_scores_gemma":[0.001168385,0.0002728879,0.003434364,0.0017117,0.0006362472,0.0009986346,0.0001382202,0.0254152,0.02442659,0.05348477,0.887804,0.0005090832],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.001879617,0.001954261,0.2197321,0.0009752038,0.0008023644,0.0006414246,0.1056534,0.6579235,0.01043833],"genre_scores_gemma":[0.02021457,0.003607582,0.3186179,0.002859665,0.0002313991,0.005104579,0.3053092,0.3252749,0.01878012],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.08316671,"threshold_uncertainty_score":0.2782204,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0297178232333142,"score_gpt":0.3628435056849346,"score_spread":0.3331256824516204,"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."}}