{"id":"W4408283369","doi":"10.1021/acsomega.4c06211","title":"Comparison of the Human Plasma Peptides from the Fit of Fragmentation Spectra versus Accurate Monoisotopic Precursor Mass","year":2025,"lang":"en","type":"article","venue":"ACS Omega","topic":"Advanced Proteomics Techniques and Applications","field":"Chemistry","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Toronto Metropolitan University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Monoisotopic mass; Fragmentation (computing); Mass spectrum; Human plasma; Spectral line; Chemistry; Chromatography; Mass spectrometry; Physics; Biology; Astronomy","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00003460716,0.00008243321,0.0001317696,0.00001183048,0.0001124817,0.00001266344,0.0004014114,0.00005923285,0.00002616453],"category_scores_gemma":[0.00002875624,0.00005730923,0.00005601133,0.0001186122,0.00008092901,0.00004225044,0.00006981137,0.00015029,0.000001692729],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003615706,"about_ca_system_score_gemma":0.00001973913,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001024071,"about_ca_topic_score_gemma":0.00004339246,"domain_scores_codex":[0.9994287,0.00001141606,0.000248873,0.0001321099,0.00009409933,0.00008478529],"domain_scores_gemma":[0.9991033,0.0001915257,0.0002198439,0.0004384237,0.00003663298,0.00001024834],"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":[0.00004770134,0.00007861583,0.02450055,0.00004501014,0.00006800143,5.830497e-8,0.0004132942,0.0003141581,0.9575874,0.01444084,0.00110299,0.001401451],"study_design_scores_gemma":[0.0003637963,0.00001198926,0.003140907,0.00005654554,0.00003756498,3.035112e-8,0.0003736193,0.000332183,0.9800966,0.01374372,0.001788642,0.00005439339],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9917667,0.00007818289,0.001717109,0.0004237731,0.0000368791,0.0002174721,0.00007096114,0.00003001968,0.005658927],"genre_scores_gemma":[0.9946454,0.00002217913,0.004537284,0.00001869416,0.00002842993,0.0000981186,0.00002388181,0.000006987767,0.0006190275],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02250927,"threshold_uncertainty_score":0.2337003,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03855882048303184,"score_gpt":0.3522187927235026,"score_spread":0.3136599722404708,"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."}}