{"id":"W4382343955","doi":"10.1186/s13059-023-02985-y","title":"ExplaiNN: interpretable and transparent neural networks for genomics","year":2023,"lang":"en","type":"article","venue":"Genome biology","topic":"Gene expression and cancer classification","field":"Biochemistry, Genetics and Molecular Biology","cited_by":47,"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; Canadian Institutes of Health Research","keywords":"Genome Biology; Biology; Human genetics; Genomics; Computational genomics; Artificial neural network; Computational biology; Evolutionary biology; Personal genomics; Artificial intelligence; Genetics; Genome; Computer science; Gene","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":[0.0009768221,0.001325808,0.0004795641,0.0006214097,0.0003071929,0.001174237,0.001719827,0.001293071,0.004873632],"category_scores_gemma":[0.004608557,0.0007478319,0.0008727749,0.0005072245,0.0007590244,0.00209399,0.001573153,0.002323661,0.001694623],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000787997,"about_ca_system_score_gemma":0.0008375428,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00324482,"about_ca_topic_score_gemma":0.005355421,"domain_scores_codex":[0.9995806,0.000108409,0.00002235412,0.0001224059,0.0001359643,0.00003029304],"domain_scores_gemma":[0.9991036,0.0005481989,0.00007619735,0.0001552627,0.0000851548,0.00003155795],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0003727967,0.0001428842,0.003115025,0.0007367957,0.0002420925,0.0004469972,0.0002057737,0.4182202,0.02728468,0.1238623,0.04662713,0.3787433],"study_design_scores_gemma":[0.00002447724,0.00002081354,0.0003432482,0.00004760716,0.00001502119,0.00006144325,0.0000125975,0.9011777,0.005568607,0.08020355,0.01250618,0.00001876977],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.00513656,0.0006693092,0.9782835,0.0005692543,0.0001021679,0.00004604929,0.00157948,0.01157723,0.002036433],"genre_scores_gemma":[0.2153905,0.001751521,0.7613763,0.001046094,0.0001780846,0.0003974844,0.009979718,0.00307895,0.006801313],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.004873632,"threshold_uncertainty_score":0.01630396,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02998114762999924,"score_gpt":0.2846556744219202,"score_spread":0.254674526791921,"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."}}