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Xiuxia Du
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One step forward for reducing false positive and false negative compound identifications from mass spectrometry metabolomics data: new algorithms for constructing extracted ion …
OD Myers, SJ Sumner, S Li, S Barnes, X Du
Analytical chemistry 89 (17), 8696-8703, 2017
3202017
Detailed investigation and comparison of the XCMS and MZmine 2 chromatogram construction and chromatographic peak detection methods for preprocessing mass spectrometry …
OD Myers, SJ Sumner, S Li, S Barnes, X Du
Analytical Chemistry 89 (17), 8689-8695, 2017
1602017
Integrative analysis of multimodal mass spectrometry data in MZmine 3
R Schmid, S Heuckeroth, A Korf, A Smirnov, O Myers, TS Dyrlund, ...
Nature biotechnology 41 (4), 447-449, 2023
1352023
Identification of cross-linked peptides after click-based enrichment using sequential collision-induced dissociation and electron transfer dissociation tandem mass spectrometry
SM Chowdhury, X Du, N Tolic, S Wu, RJ Moore, MU Mayer, RD Smith, ...
Analytical chemistry 81 (13), 5524-5532, 2009
1132009
Training in metabolomics research. I. Designing the experiment, collecting and extracting samples and generating metabolomics data
S Barnes, HP Benton, K Casazza, SJ Cooper, X Cui, X Du, J Engler, ...
Journal of Mass Spectrometry 51 (7), 461-475, 2016
1122016
Auto-deconvolution and molecular networking of gas chromatography–mass spectrometry data
AA Aksenov, I Laponogov, Z Zhang, SLF Doran, I Belluomo, D Veselkov, ...
Nature biotechnology 39 (2), 169-173, 2021
922021
Spectral deconvolution for gas chromatography mass spectrometry-based metabolomics: current status and future perspectives
X Du, SH Zeisel
Computational and structural biotechnology journal 4 (5), e201301013, 2013
912013
Comparative proteomics of human monkeypox and vaccinia intracellular mature and extracellular enveloped virions
NP Manes, RD Estep, HM Mottaz, RJ Moore, TRW Clauss, ME Monroe, ...
Journal of proteome research 7 (3), 960-968, 2008
912008
The PHD and chromo domains regulate the ATPase activity of the human chromatin remodeler CHD4
AA Watson, P Mahajan, HDT Mertens, MJ Deery, W Zhang, P Pham, X Du, ...
Journal of molecular biology 422 (1), 3-17, 2012
882012
ADAP-GC 2.0: deconvolution of coeluting metabolites from GC/TOF-MS data for metabolomics studies
Y Ni, Y Qiu, W Jiang, K Suttlemyre, M Su, W Zhang, W Jia, X Du
Analytical chemistry 84 (15), 6619-6629, 2012
812012
ADAP-GC 3.0: improved peak detection and deconvolution of co-eluting metabolites from GC/TOF-MS data for metabolomics studies
Y Ni, M Su, Y Qiu, W Jia, X Du
Analytical chemistry 88 (17), 8802-8811, 2016
712016
Training in metabolomics research. II. Processing and statistical analysis of metabolomics data, metabolite identification, pathway analysis, applications of metabolomics and …
S Barnes, HP Benton, K Casazza, SJ Cooper, X Cui, X Du, J Engler, ...
Journal of mass spectrometry 51 (8), 535-548, 2016
672016
An automated data analysis pipeline for GC− TOF− MS metabonomics studies
W Jiang, Y Qiu, Y Ni, M Su, W Jia, X Du
Journal of proteome research 9 (11), 5974-5981, 2010
652010
Xlink-identifier: an automated data analysis platform for confident identifications of chemically cross-linked peptides using tandem mass spectrometry
X Du, SM Chowdhury, NP Manes, S Wu, MU Mayer, JN Adkins, ...
Journal of proteome research 10 (3), 923-931, 2011
612011
ADAP-GC 4.0: application of clustering-assisted multivariate curve resolution to spectral deconvolution of gas chromatography–mass spectrometry metabolomics data
A Smirnov, Y Qiu, W Jia, DI Walker, DP Jones, X Du
Analytical chemistry 91 (14), 9069-9077, 2019
592019
Metabolomics data preprocessing using ADAP and MZmine 2
X Du, A Smirnov, T Pluskal, W Jia, S Sumner
Computational Methods and Data Analysis for Metabolomics, 25-48, 2020
502020
Discovery of mouse spleen signaling responses to anthrax using label-free quantitative phosphoproteomics via mass spectrometry
NP Manes, L Dong, W Zhou, X Du, N Reghu, AC Kool, D Choi, CL Bailey, ...
Molecular & Cellular Proteomics 10 (3), 2011
432011
Metabolic reprogramming by folate restriction leads to a less aggressive cancer phenotype
Z Ashkavand, C O'Flanagan, M Hennig, X Du, SD Hursting, SA Krupenko
Molecular cancer research 15 (2), 189-200, 2017
402017
A practical guide to metabolomics software development
HY Chang, SM Colby, X Du, JD Gomez, MJ Helf, K Kechris, ...
Analytical chemistry 93 (4), 1912-1923, 2021
372021
Phosphoproteomics profiling of human skin fibroblast cells reveals pathways and proteins affected by low doses of ionizing radiation
F Yang, KM Waters, JH Miller, MA Gritsenko, R Zhao, X Du, EA Livesay, ...
PLoS One 5 (11), e14152, 2010
372010
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