{"id":"W4200301447","doi":"10.1093/bioinformatics/btab852","title":"geoCancerPrognosticDatasetsRetriever: a bioinformatics tool to easily identify cancer prognostic datasets on Gene Expression Omnibus (GEO)","year":2021,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Gene expression and cancer classification","field":"Biochemistry, Genetics and Molecular Biology","cited_by":40,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"","keywords":"Perl; Computer science; Data mining; DNA microarray; MIT License; Download; Bioinformatics; Computational biology; Information retrieval; Software; Gene; Gene expression; World Wide Web; Biology; Programming language","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":[0.005484794,0.003147037,0.003039443,0.008329907,0.0016948,0.003830023,0.005565442,0.002408297,0.06038751],"category_scores_gemma":[0.01612804,0.002808861,0.002513537,0.009219492,0.0009708932,0.003630591,0.006204216,0.003691259,0.06334682],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001618915,"about_ca_system_score_gemma":0.004108706,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005396002,"about_ca_topic_score_gemma":0.007738518,"domain_scores_codex":[0.9964384,0.0005824032,0.0004929592,0.0009535453,0.001194938,0.0003377816],"domain_scores_gemma":[0.9931555,0.002790618,0.0009214797,0.001502805,0.001122531,0.0005070817],"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":[0.0008736984,0.00009816649,0.002559881,0.002446441,0.0002502777,0.0004279798,0.0004470517,0.001559093,0.008997347,0.004615163,0.93925,0.03847492],"study_design_scores_gemma":[0.0008794203,0.0001638145,0.007588444,0.0005005888,0.000161304,0.0006014276,0.000266913,0.01186771,0.02556372,0.02108833,0.9309691,0.0003490879],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.002377713,0.0006315537,0.05941539,0.0008533077,0.0003967649,0.0004335388,0.4956638,0.4349572,0.005270723],"genre_scores_gemma":[0.01258026,0.0007933337,0.1067754,0.001444875,0.0001646312,0.00267176,0.8099811,0.06020398,0.005384739],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.06038751,"threshold_uncertainty_score":0.2020164,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01894596870205884,"score_gpt":0.2948328055811739,"score_spread":0.2758868368791151,"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."}}