title: Detection and correction of interference in SRM analysis.
abstract: Selected Reaction Monitoring (SRM) is a method of choice for accurate quantitation of low-abundance proteins in complex backgrounds. This strategy is, however, sensitive to interference from other components in the sample that have the same precursor and fragment masses as the monitored transitions. We present here an approach to detect interference by using the expected relative intensity of SRM transitions. We also designed an algorithm to automatically detect the linear range of calibration curves. These approaches were applied to the experimental data of Clinical Proteomic Tumor Analysis Consortium (CPTAC) Verification Work Group Study 7 and show that the corrected measurements provide more accurate quantitation than the uncorrected data.
authors.affiliation: Laboratory of Computational Proteomics, Center for Health Informatics and Bioinformatics, New York University School of Medicine, New York, NY, USA.
authors.forename: Y
authors.initials: Y
authors.lastname: Bao
authors.forename: S
authors.initials: S
authors.lastname: Waldemarson
authors.forename: G
authors.initials: G
authors.lastname: Zhang
authors.forename: A
authors.initials: A
authors.lastname: Wahlander
authors.forename: B
authors.initials: B
authors.lastname: Ueberheide
authors.forename: S
authors.initials: S
authors.lastname: Myung
authors.forename: B
authors.initials: B
authors.lastname: Reed
authors.forename: K
authors.initials: K
authors.lastname: Molloy
authors.forename: J C
authors.initials: JC
authors.lastname: Padovan
authors.forename: J
authors.initials: J
authors.lastname: Eriksson
authors.forename: T A
authors.initials: TA
authors.lastname: Neubert
authors.forename: B T
authors.initials: BT
authors.lastname: Chait
authors.forename: D
authors.initials: D
authors.lastname: Fenyö
mesh_terms: D000465:Algorithms; D002138:Calibration; D006801:Humans; D010446:Peptide Fragments / Q000032:analysis*; D011506:Proteins / Q000032:analysis*; D040901:Proteomics / Q000379:methods / Q000706:statistics & numerical data*; D059629:Signal-To-Noise Ratio; D053719:Tandem Mass Spectrometry / Q000592:standards*; D054928:Validation Studies as Topic
chemical_list: D010446:Peptide Fragments; D011506:Proteins