{"id":"W2135078307","doi":"10.1074/mcp.m111.010587","title":"PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification","year":2011,"lang":"en","type":"article","venue":"Molecular & Cellular Proteomics","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":1114,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University; University of Waterloo; Bioinformatics Solutions (Canada)","funders":"","keywords":"Computational biology; Identification (biology); Biology; Chemistry; Computer science","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":[0.004994333,0.003034269,0.002506906,0.00453583,0.001219582,0.0035077,0.004032625,0.00149959,0.01762813],"category_scores_gemma":[0.003871391,0.001693269,0.001667544,0.002722571,0.0006683411,0.003167334,0.00295964,0.003495306,0.02172254],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009488405,"about_ca_system_score_gemma":0.002657841,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001142481,"about_ca_topic_score_gemma":0.001457768,"domain_scores_codex":[0.9959809,0.0006393597,0.0005314088,0.0007718265,0.001715271,0.0003611902],"domain_scores_gemma":[0.9978762,0.0006532856,0.0003213687,0.0002990975,0.0006239114,0.0002260885],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.004803461,0.000667833,0.00425037,0.004081256,0.0009762728,0.001545942,0.0003682687,0.003786553,0.2445523,0.01119745,0.3383288,0.3854415],"study_design_scores_gemma":[0.001371802,0.0009592277,0.005915633,0.0004602688,0.0003430025,0.004145597,0.0002345892,0.09580888,0.3792911,0.01269196,0.4982143,0.0005636858],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.01654344,0.006273987,0.6727862,0.0006875578,0.0007011809,0.001690603,0.04953018,0.2381062,0.01368068],"genre_scores_gemma":[0.03226858,0.002434189,0.8424258,0.001330624,0.0001750877,0.00224647,0.0979346,0.01175427,0.009430384],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01762813,"threshold_uncertainty_score":0.058972,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04365512402571903,"score_gpt":0.2846905781843063,"score_spread":0.2410354541585872,"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."}}