viQC: Visual and Intuitive Quality Control for Mass Spectrometry-Based Proteome Analysis
- 作者: Solovyeva E.1,2, Lobas A.2, Surin A.3,4, Levitsky L.2, Gorshkov V.5, Gorshkov M.2
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隶属关系:
- Moscow Institute of Physics and Technology (State University)
- Talrose Institute for Energy Problems of Chemical Physics, Russian Academy of Sciences
- Pushchino Branch, Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences
- Microbiology & Biotechnology
- University of Southern Denmark
- 期: 卷 74, 编号 14 (2019)
- 页面: 1363-1370
- 栏目: Articles
- URL: https://journals.rcsi.science/1061-9348/article/view/183376
- DOI: https://doi.org/10.1134/S1061934819140119
- ID: 183376
如何引用文章
详细
Mass spectrometry-based bottom-up proteomics becomes a method of choice in a broad range of biomedical studies. However, because of the growing complexity of the mass spectrometers employed in these studies, there is an increasing need in robust and rapid quality control over the instrument performance. A variety of quality control tools targeting all aspects of LC–MS instrument operation have been developed recently. These tools are typically loaded heavily with a large number of metrics. Many of these metrics are difficult for interpretation for regular users without extensive instrumentation and/or data processing experience. In this work, we introduced a set of simple and intuitively understandable metrics for assessing the quality of proteomic analysis, including the total experimental time and the number of spectral scans, ion accumulation time and intensity in both MS and MS/MS spectra, charge state distribution for precursor peptide ions, and the number of sequential MS/MS scans, etc. These metrics are implemented as an open-source utility, viQC, freely available at hg.theorchromo.ru/viQC. The developed tool has been tested experimentally using data from three different Orbitrap instruments and demonstrated its capability for assessing the possible flaws in the instrument’s operation and subsequent improving the efficiency of proteomic analysis.
作者简介
E. Solovyeva
Moscow Institute of Physics and Technology (State University); Talrose Institute for Energy Problems of Chemical Physics, Russian Academy of Sciences
Email: mike.gorshkov@gmail.com
俄罗斯联邦, Dolgoprudny, Moscow oblast, 141700; Moscow, 119334
A. Lobas
Talrose Institute for Energy Problems of Chemical Physics, Russian Academy of Sciences
Email: mike.gorshkov@gmail.com
俄罗斯联邦, Moscow, 119334
A. Surin
Pushchino Branch, Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences; Microbiology & Biotechnology
Email: mike.gorshkov@gmail.com
俄罗斯联邦, Pushchino, Moscow oblast, 142290; Obolensk, Moscow oblast, 142279
L. Levitsky
Talrose Institute for Energy Problems of Chemical Physics, Russian Academy of Sciences
Email: mike.gorshkov@gmail.com
俄罗斯联邦, Moscow, 119334
V. Gorshkov
University of Southern Denmark
Email: mike.gorshkov@gmail.com
丹麦, Odense, 5230
M. Gorshkov
Talrose Institute for Energy Problems of Chemical Physics, Russian Academy of Sciences
编辑信件的主要联系方式.
Email: mike.gorshkov@gmail.com
俄罗斯联邦, Moscow, 119334
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