{"id":"W2757568770","doi":"10.3389/fmed.2017.00153","title":"TruSeq-Based Gene Expression Analysis of Formalin-Fixed Paraffin-Embedded (FFPE) Cutaneous T-Cell Lymphoma Samples: Subgroup Analysis Results and Elucidation of Biases from FFPE Sample Processing on the TruSeq Platform","year":2017,"lang":"en","type":"article","venue":"Frontiers in Medicine","topic":"Cutaneous lymphoproliferative disorders research","field":"Medicine","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ottawa Hospital; University of Ottawa; Université Laval; Université de Montréal; McGill University Health Centre","funders":"Department of Medicine, Ottawa Hospital; Fonds de Recherche du Québec - Santé; Canadian Dermatology Foundation; Ottawa Hospital Research Institute; Dermatology Foundation","keywords":"Cutaneous T-cell lymphoma; Gene; Lymphoma; Gene expression; Mycosis fungoides; Stage (stratigraphy); Biology; Medicine; Pathology; Cancer research; Genetics","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":[0.000966483,0.0003740669,0.000459207,0.001184747,0.0002191872,0.0005946361,0.0001916329,0.000292461,0.0006108135],"category_scores_gemma":[0.001455152,0.0001110284,0.0003840734,0.0009606581,0.0002736608,0.0002528867,0.0003417396,0.0002912526,0.000323095],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002159766,"about_ca_system_score_gemma":0.0001474856,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006783873,"about_ca_topic_score_gemma":0.001224553,"domain_scores_codex":[0.9993605,0.00007897829,0.00007237261,0.0002465555,0.0001548123,0.00008695495],"domain_scores_gemma":[0.9994259,0.0001807789,0.0001353432,0.00008648747,0.0001300622,0.00004147981],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0008584962,0.00005654313,0.1788412,0.0002127026,0.0002536094,0.0003074899,0.0004662237,0.0004124454,0.7929688,0.00008964798,0.0003165496,0.02521641],"study_design_scores_gemma":[0.00002475431,0.0004846598,0.7995359,0.00003081512,0.0003614631,0.001504669,0.0004698877,0.004133027,0.1889647,0.0003793827,0.00408105,0.00002973967],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9922827,0.0009066846,0.005396063,0.00004357634,0.00001205441,0.00005050544,0.0009146052,0.00006891961,0.0003249792],"genre_scores_gemma":[0.9849083,0.0005011349,0.009526269,0.0001012601,0.00002270313,0.0001575473,0.004036,0.00009354039,0.0006532978],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001184747,"threshold_uncertainty_score":0.005111337,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05909126949065426,"score_gpt":0.3267636422206507,"score_spread":0.2676723727299964,"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."}}