{"id":"W2421831709","doi":"10.1021/acs.jproteome.5b00404","title":"Sample Collection Method Bias Effects in Quantitative Phosphoproteomics","year":2015,"lang":"en","type":"article","venue":"Journal of Proteome Research","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Phosphoproteomics; Phosphorylation; Phosphopeptide; Protein phosphorylation; Quantitative proteomics; Proteomics; Proteome; Sample preparation; Chemistry; Biochemistry; Biology; Chromatography","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":[0.03420936,0.002801327,0.001650952,0.002148498,0.002376407,0.002307392,0.001929129,0.002029656,0.00253762],"category_scores_gemma":[0.04009651,0.001984461,0.00121947,0.002667432,0.002903994,0.001209759,0.002463109,0.001785057,0.001304279],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001381759,"about_ca_system_score_gemma":0.001609462,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001793133,"about_ca_topic_score_gemma":0.003706356,"domain_scores_codex":[0.955849,0.01506501,0.00417589,0.00834436,0.01539341,0.001172309],"domain_scores_gemma":[0.9710334,0.0174068,0.002572428,0.003946017,0.004806301,0.0002350005],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001437007,0.0003275505,0.009427888,0.002449268,0.0005952648,0.0004323849,0.000765483,0.001547144,0.9475754,0.002294554,0.001833602,0.03131449],"study_design_scores_gemma":[0.00009187182,0.0007720232,0.01435947,0.0001777976,0.0006131524,0.0007946398,0.000154516,0.00867865,0.9556313,0.002611799,0.01600494,0.0001099148],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.2270472,0.02171542,0.7312617,0.001583177,0.003164646,0.004963304,0.002240128,0.003415796,0.004608654],"genre_scores_gemma":[0.3106771,0.008280968,0.6570156,0.002690376,0.0005120007,0.009335785,0.004381695,0.003412829,0.003693746],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.03420936,"threshold_uncertainty_score":0.1809185,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.2021600302478485,"score_gpt":0.4795608120692456,"score_spread":0.2774007818213971,"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."}}