{"id":"W3118322235","doi":"10.1186/s12859-021-04179-4","title":"GWENA: gene co-expression networks analysis and extended modules characterization in a single Bioconductor package","year":2021,"lang":"en","type":"article","venue":"BMC Bioinformatics","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":66,"is_retracted":false,"has_abstract":true,"ca_institutions":"Centre hospitalier universitaire de Québec; Université Laval","funders":"","keywords":"Bioconductor; Gene co-expression network; Computational biology; Phenotype; DNA microarray; Gene; Gene regulatory network; Biology; Gene expression; Gene expression profiling; Computer science; Systems biology; Pipeline (software); Expression (computer science); Biological network; Topology (electrical circuits); Genetics; Mathematics","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":[0.007646771,0.006175614,0.004314946,0.004979273,0.001079625,0.00346771,0.006018676,0.001652873,0.03557638],"category_scores_gemma":[0.0199568,0.002238315,0.005089676,0.004347694,0.001241805,0.002308292,0.004858872,0.004294524,0.02844892],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000922341,"about_ca_system_score_gemma":0.004185804,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002977319,"about_ca_topic_score_gemma":0.002671251,"domain_scores_codex":[0.9965876,0.001029008,0.0003226573,0.001264434,0.0005403688,0.0002559503],"domain_scores_gemma":[0.9931222,0.00342894,0.0008153943,0.001307234,0.0009869353,0.0003394005],"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":[0.003868973,0.0004012182,0.0166365,0.01492954,0.008112733,0.001863747,0.001946929,0.03151942,0.02313438,0.03256914,0.7089735,0.156044],"study_design_scores_gemma":[0.001557519,0.0007835476,0.02547329,0.001859475,0.00340928,0.001925675,0.0003955398,0.2401032,0.03346689,0.1018606,0.5883792,0.0007858728],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.009446666,0.001595919,0.4387394,0.0007284656,0.0008255636,0.0006303391,0.08868184,0.4559742,0.003377631],"genre_scores_gemma":[0.07031614,0.001997741,0.6165501,0.001286825,0.0003383092,0.01283929,0.1783116,0.1099631,0.008396967],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.03557638,"threshold_uncertainty_score":0.1190148,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0120780218858911,"score_gpt":0.2305698760214756,"score_spread":0.2184918541355845,"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."}}