{"id":"W2083697083","doi":"10.1371/journal.pone.0071971","title":"Visualized Computational Predictions of Transcriptional Effects by Intronic Endogenous Retroviruses","year":2013,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Cancer Agency; University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Transposable element; Endogenous retrovirus; Biology; Gene; Genetics; Transcription (linguistics); Retrotransposon; Computational biology; Regulation of gene expression; Intron; Transcription factor; Genome","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":[0.000415986,0.0006537474,0.0004627988,0.0004200685,0.0002167752,0.000549946,0.0005870541,0.0007322032,0.001890262],"category_scores_gemma":[0.001894301,0.0003071504,0.0005685553,0.0002662922,0.0003520387,0.0003334091,0.0002238234,0.0005212993,0.0001464335],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007389357,"about_ca_system_score_gemma":0.0005518455,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.009825262,"about_ca_topic_score_gemma":0.006211403,"domain_scores_codex":[0.9998676,0.00004594276,0.00000836971,0.00003782574,0.00001945784,0.00002085295],"domain_scores_gemma":[0.9985506,0.001189073,0.00007701819,0.00004037287,0.00009909251,0.00004391638],"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":[0.00002718,0.00001067453,0.0008050044,0.00000664524,0.000005754964,0.00002219129,0.000003809582,0.9974552,0.0002690179,0.0002537163,0.00005767819,0.001083121],"study_design_scores_gemma":[0.000001148343,0.000002481386,0.00005931928,4.288827e-7,7.485847e-7,0.000001312578,7.79095e-7,0.9996475,0.000103343,0.0001722222,0.00001024456,4.936296e-7],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8952545,0.0001512302,0.09902508,0.0002898207,0.00004626428,0.00003693058,0.0008394354,0.0009401133,0.003416483],"genre_scores_gemma":[0.977034,0.00004954408,0.02120473,0.00004065316,0.00001128089,0.00005471868,0.0005566133,0.00004851932,0.0009999541],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.009825262,"threshold_uncertainty_score":0.01953614,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03625304343432847,"score_gpt":0.2076173554915269,"score_spread":0.1713643120571985,"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."}}