PuSH - Publikationsserver des Helmholtz Zentrums München

Stanfill, B.A.* ; Nakayasu, E.S.* ; Bramer, L.M.* ; Thompson, A.M.* ; Ansong, C.K.* ; Clauss, T.R.* ; Gritsenko, M.A.* ; Monroe, M.E.* ; Moore, R.J.* ; Orton, D.J.* ; Piehowski, P.D.* ; Schepmoes, A.A.* ; Smith, R.D.* ; Webb-Robertson, B.M.* ; Metz, T.O.* ; TEDDY Study Group (Ziegler, A.-G. ; Beyerlein, A. ; Hummel, M. ; Hummel, S. ; Knopff, A. ; Roth, R. ; Scholz, M. ; Stock, J. ; Warncke, K. ; Wendel, L. ; Winkler, C.)

Quality control analysis in real-time (QC-ART): A tool for real-time quality control assessment of mass spectrometry-based proteomics data.

Mol. Cell. Proteomics 17, 1824-1836 (2018)
Verlagsversion DOI PMC
Open Access Green möglich sobald Postprint bei der ZB eingereicht worden ist.
Liquid chromatography-mass spectrometry (LC-MS)-based proteomics studies of large sample cohorts can easily require from months to years to complete. Acquiring consistent, high-quality data in such large-scale studies is challenging because of normal variations in instrumentation performance over time, as well as artifacts introduced by the samples themselves, such as those because of collection, storage and processing. Existing quality control methods for proteomics data primarily focus on post-hoc analysis to remove low-quality data that would degrade downstream statistics; they are not designed to evaluate the data in near real-time, which would allow for interventions as soon as deviations in data quality are detected. In addition to flagging analyses that demonstrate outlier behavior, evaluating how the data structure changes over time can aide in understanding typical instrument performance or identify issues such as a degradation in data quality because of the need for instrument cleaning and/or re-calibration. To address this gap for proteomics, we developed Quality Control Analysis in Real-Time (QC-ART), a tool for evaluating data as they are acquired to dynamically flag potential issues with instrument performance or sample quality. QC-ART has similar accuracy as standard post-hoc analysis methods with the additional benefit of real-time analysis. We demonstrate the utility and performance of QC-ART in identifying deviations in data quality because of both instrument and sample issues in near real-time for LC-MS-based plasma proteomics analyses of a sample subset of The Environmental Determinants of Diabetes in the Young cohort. We also present a case where QC-ART facilitated the identification of oxidative modifications, which are often underappreciated in proteomic experiments.
Altmetric
Weitere Metriken?
[➜Einloggen]
Zusatzinfos bearbeiten [➜Einloggen]
Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Korrespondenzautor
ISSN (print) / ISBN 1535-9476
e-ISSN 1535-9484
Zeitschrift Molecular and Cellular Proteomics
Quellenangaben Band: 17, Heft: 9, Seiten: 1824-1836 Artikelnummer: , Supplement: ,
Verlag American Society for Biochemistry and Molecular Biology
Nichtpatentliteratur Publikationen
Begutachtungsstatus Peer reviewed
Institut(e) Institute of Diabetes Research Type 1 (IDF)