ABOUT ME
Do your best, and let the God do the rest.
I am a phD student in Interdisciplinary Research Center on Biology and Chemistry (IRCBC), Shanghai Institute of Organic Chemistry (SIOC), Chinese Academy of Sciences (CAS). I am broadly interested in Metabolomics, Analytical chemistry, Biostatictics, Systems biology and Bioinformatics.
My research focuses on the development of bioinformatic algorithms and tools for large-scale metabolomics as well as its application in discovering new biomarkers related to human diseases. I have developed several algorithms and tools in the past five years. The first algorithm was MetNormalizer, which is a machine learning-based algorithm for data normalization and integration of large-scale metabolomics. Then I developed a web-based tool, MetFlow , aiming to provide a comprehensive pipeline for data cleaning and statistical analysis of large-scale metabolomics. The most important algorithm I have developed is called MetDNA, which is a novel algorithm for metabolite identification and dysregulated pathway analysis in untargeted metabolomics.
Education
I am made up of choices.
Chinese Academy of Sciences
2013.9 - Present
Ph.D. in Metabolomics and Bioinformatics
Advisor: Dr. Zheng-Jiang Zhu
research INTERESTS
I like science, but science doesn't like me.
Metabolomics
Large-scale metabolomics data processing and analysis.
R programming
For data and science.
Bioinformatics&Biostatistics
Algorithm and software development.
Biomarker Discovery
Precision medicine for the better life.
HONORS AND AWARDS
Student Travel Award
The International Metabolomics Society (2018)
Travel Award
Journal Metabolites (2018)
China National Scholarship
Ministry of Education of the People’s Republic of China (2017)
Award for Outstanding Report
The 3th China Mass Spectrometry Analysis Conference (2017).
Merit Student
University of Chinese Academy of Sciences (2016)
Award for Outstanding Report
The 34th China Mass Spectrometry Society Conference (2016)
Inner Mongolia Outstanding Graduate
Inner Mongolia Autonomous Region (2013)
National Encouragement Scholarship
Ministry of Education of the People’s Republic of China (2011)
PUBLICATIONs
Large-scale Metabolite Identification for Untargeted Metabolomics Using Metabolic Reaction Network.
X. Shen, R. Wang, X. Xiong, Y. Yin, Y. Cai, J. Ma, N. Liu and Z.-J. Zhu, Nature Communications, 2018, in revision.
MetFlow: An Interactive and Integrated Workflow for Metabolomics Data Cleaning and Differential Metabolite Discovery.
X. Shen and Z.-J. Zhu, Bioinformatics, 2018, under review.
LipidIMMS Analyzer: Integrating Multi-dimensional Information to Support Lipid Identification in Ion Mobility–Mass Spectrometry based Lipidomics.
Z. Zhou, X. Shen, X. Chen, J. Tu, X. Xiong, and Z.-J. Zhu, Bioinformatics, 2018, in press. LINK
Assessment of The Response to Neoadjuvant Chemo-Radiation in Rectal Cancer Patients based on a Metabolomics Approach.
H. Jia, X. Shen (Co-first author), Y. Guan, M. Xu, M. Mo, J. Zhu and Z.-J. Zhu, Radiotherapy and Oncology, 2018, in press. LINK
LipidCCS: Prediction of Collision Cross-Section Values for Lipids with High Precision to Support Ion Mobility-Mass Spectrometry based Lipidomics.
Z. Zhou, J. Tu, X. Xiong, X. Shen, and Z.-J. Zhu, Analytical Chemistry, 2017, 89, 9559–9566. LINK
Large-Scale Prediction of Collision Cross-Section Values for Metabolites in Ion Mobility - Mass Spectrometry.
Z. Zhou, X. Shen, J. Tu, and Z.-J. Zhu, Analytical Chemistry, 2016, 88, 11084-11091. LINK
Serum Metabolomics for Early Diagnosis of Esophageal Squamous Cell Carcinoma by UHPLC-QTOF/MS.
J. Wang, T. Zhang, X. Shen (Co-first author), J. Liu, D. Zhao, Y. Sun, L. Wang, Y. Liu, X. Gong, Y. Liu, Z.-J. Zhu, F. Xue, Metabolomics, 2016, 12: 116. LINK
Normalization and Integration of Large-Scale Metabolomics Data Using Support Vector Regression.
X. Shen, X. Gong, Y. Cai, Y. Guo, J. Tu, H. Li, T.Zhang, J. Wang, F. Xue, and Z.-J. Zhu, Metabolomics, 2016, 12: 89. LINK
oral & poster presentations
Metabolic Reaction Network-based Recursive Metabolite Identification for Untargeted Metabolomics. (oral)
The 14th International Conference of the Metabolomics Society, 28th, June, 2018, Seattle, Washington, USA.
Assessment of the Response to Neoadjuvant Chemo-Radiation in Rectal Cancer Patients based on a Metabolomics Approach.(oral)
The Third China Mass Spectrometry Analysis Conference, December, 2017, Xiamen, Fujian, China.
Normalization and Integration of Large-Scale Mass Spectrometry-based Metabolomics Data Using Support Vector Regression.(oral)
The 34th China Mass Spectrometry Society Conference, September, 2016, Xining, Qinghai, China.
Normalization and Integration of Large-Scale Mass Spectrometry-based Metabolomics Data Using Support Vector Regression.(oral)
The 64th American Society for Mass Spectrometry Conference, June, 2016, San Antonio, Texas, USA.
Metabolic Reaction Network-based Metabolite Annotation in Untargeted Metabolomics. (poster)
The 13th International Conference of the Metabolomics Society, June, 2017, Brisbane, Austria.
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