{"id":"W3080409390","doi":"10.1101/2020.08.20.259762","title":"Transcriptome-wide Cas13 guide RNA design for model organisms and viral RNA pathogens","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Cancer Institute; Advanced Research Projects Agency; National Institutes of Health; York University; Sidney Kimmel Foundation; Melanoma Research Alliance","keywords":"CRISPR; Biology; RNA; Guide RNA; Computational biology; Cas9; Gene; Non-coding RNA; RNA editing; Genetics","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.000349672,0.0006243759,0.0005092681,0.00009503135,0.0001321764,0.0001295696,0.0004383431,0.0006434292,0.000005273772],"category_scores_gemma":[0.0002369895,0.0007125284,0.0002092307,0.0001158276,0.00008058517,0.000007530166,0.0003184373,0.000347901,0.000004629536],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005744021,"about_ca_system_score_gemma":0.0004362904,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009087911,"about_ca_topic_score_gemma":0.000001503074,"domain_scores_codex":[0.9974958,0.00005669467,0.0004983875,0.001179106,0.0002017047,0.0005682924],"domain_scores_gemma":[0.9983665,0.00002899264,0.0001569785,0.0008302004,0.000256121,0.0003612503],"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":[0.00006282665,0.00003266509,0.00007554757,0.0002583541,0.0001609536,0.00001431934,0.00001764281,0.00688745,0.9909256,0.00009183052,0.001467814,0.000005010654],"study_design_scores_gemma":[0.0007128699,0.0001698426,0.0006037949,0.00006877378,0.000187947,5.040105e-8,0.000003897589,0.0148791,0.9764991,0.00001112787,0.006019076,0.0008444597],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.3394013,0.002363256,0.6561422,0.0002334248,0.0004118243,0.0008756915,0.000449688,0.000115511,0.000007109455],"genre_scores_gemma":[0.9104493,0.000714921,0.08745951,0.0004407288,0.0004701606,0.0002319334,0.00000341045,0.0002100644,0.00001997228],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.571048,"threshold_uncertainty_score":0.9995326,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01621014593382835,"score_gpt":0.2486733428771868,"score_spread":0.2324631969433585,"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."}}