XUAN GUO RESEARCH INTERESTS EDUCATION WORK EXPERIENCE HONORS AND AWARDS

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1 XUAN GUO Oak Ridge National Laboratory 1 Bethel Valley Rd, Building 1059 Suite 211 Oak Ridge, TN 37830, U.S.A Cell Phone: [email protected], [email protected] Homepage: RESEARCH INTERESTS High-Performance Computing (Big Data Analytics, Cloud Computing, Distributed Computing) Data Mining (Computational Biology, Machine Learning, Bioinformatics) EDUCATION Ph.D. in Computer Science at Georgia State University, Atlanta, GA, U.S.A. Advisor: Dr. Yi Pan Dissertation title: Searching Genome-wide Disease Association through SNP Data (111 pages) Fall 2015 (graduation date) M.Sc. in Computer Science at Wuhan University, Wuhan, Hubei, CHINA Advisor: Dr. Juan Liu Dissertation title: Research of Clustering Algorithms Used in 3D Gene Microarray Data Analysis (93 pages; in Chinese) Fall 2011 (graduation date) B.Sc. in Computer Science at Southwest University, Chongqing, CHINA Advisor: Dr. Huiwen Deng Dissertation title: Function Approximation of Artificial Neural Network (36 pages; in Chinese) Fall 2009 (graduation date) WORK EXPERIENCE Post-doctoral Research Associate (August present) Computer Science and Mathematics Division Oak Ridge National Laboratory, Oak Ridge, TN School of Genome Science and Technology University of Tennessee-Knoxville, Knoxville, TN HONORS AND AWARDS Georgia State University Molecular Basis of Disease Program Fellowship ( ) Georgia State University Molecular Basis of Disease Program Fellowship ( ) Georgia State University Molecular Basis of Disease Program Fellowship ( )

2 Research Assistantship from the Computer Science Department at Georgia State University ( ) Second-grade scholarship and Excellent Student Award at Wuhan University ( ) Vice Chairman of the Student Union of Computer School at Wuhan University ( ) First-grade scholarship and Excellent Student Award at Wuhan University ( ) Outstanding Prize and Excellent Student Award at Southwest University ( ) Excellent Prize at Netease Company Olympic Report Website Contest (2007) Excellent Class Cadre as Committee Member for Study at Southwest University (2006) RESEARCH EXPERIENCE 1. Designing parallel algorithms for biocomputing (supported by NSF under grant and GSU Molecular Basis of Disease Program Fellowship, January 2012-Fall 2015) Designed and implemented cloud algorithms to speed up K-means clustering algorithms and Markov chain Monte Carlo. Compared performance of Hadoop, Windows Azure, and Spark under the Map-Reduce programming model. 2. Developing algorithms for detecting gene-gene interactions in genome-wide association studies (supported by NSF under grant and GSU Molecular Basis of Disease Program Fellowship, January 2013-Fall 2015) Designed and implemented cloud-based algorithms via dynamic clustering for detecting high-order epistatic interactions. Conducted a survey to identify key problems for genome-wide association studies and the potential to solve these problems through advanced computational methods. 3. Designing assembler for metagenomic sequencing (supported by the NSF of China under grant nos , , and a GSU Molecular Basis of Disease Program Fellowship, May 2012-Fall 2015) Designed a novel framework with divide, conquer, and merge strategy to partition sequencing data, locally assemble, and globally merge to obtain contigs. Built a generative probabilistic model of sequencing procedure for correctly merge candidate assembled short sequences. 4. Mining positive and negative co-regulation patterns from 3D gene expression microarray data and discovering gene regulatory mechanism ( supported by NSF of China under grant no and Wuhan University Research Assistantship, August 2010-Auguest 2011) Completed three biologically relevant modules (SRPNCM, IRPNCM and CRPNCM) for applying algorithm to extract significant patterns. Designed and implemented the algorithm for negative co-regulation patterns by using EDISA and MOEA and evaluated the effectiveness of such techniques. TEACHING EXPERIENCE Summer Semester 2015: CSc3320 System Level Programming (Undergraduate level course) Spring Semester 2015: CSc3210 Computer Organization and Programming (Undergraduate level course) Spring Semester 2013: CSc2010 Introduction to Computer Science (Undergraduate level course) Fall Semester 2014: CSc2510 Theoretical Foundations of Computer Science (Undergraduate level course) Teaching Assistant (Responsibilities include two 50 minutes lab teaching per week, grading of exams and Spring Semester 2014: CSc2310 Principles of Computer Programming (Undergraduate level course)

3 Teaching Assistant (Responsibilities include 50 minutes lab teaching per week, grading of exams and Fall Semester 2013 and summer Semester 2014: CSc2010 Introduction to Computer Science (Undergraduate level course) Teaching Assistant (Responsibilities include 50 minutes lab teaching per week, grading of exams and Fall 2011, Spring 2012, and Fall 2012 Lab Tutor (Responsibilities include 120 minutes lab assistance per week for classes: CSc 2010, 2310, 2510, 3210, 3320 and 3410) PUBLICATIONS Peer-Reviewed Journal Publications 1. Guo, Xuan, Yu Meng, Ning Yu, and Yi Pan. "Cloud computing for detecting high-order genome-wide epistatic interaction via dynamic clustering." BMC bioinformatics 15, no. 1 (2014): 102. (IF: 2.58) 2. Yu, Ning, Xuan Guo, Alexander Zelikovsky, and Yi Pan. GaussianCpG: A Gaussian Model for Detection of CpG Island in Human Genome Sequences, BMC Bioinformatics, (under review) (IF: 2.58) 3. Yu, Ning, Xuan Guo, Feng Gu, and Yi Pan. Signalign: An Ontology of DNA as Signal for Comparative Gene Structure Prediction Using Information-Coding-and-Processing Techniques, IEEE Transaction on Nanobioscience, (Accepted). (IF: 2.3) 4. Guo, Xuan, Ning Yu, Xiaojun Ding, Jianxin Wang, and Yi Pan. "DIME: A Novel Framework for De Novo Metagenomic Sequence Assembly." Journal of Computational Biology 22, no. 2 (2015): (IF: 1.737) 5. Guo, Xuan, Jing Zhang, Zhipeng Cai, Ding-Zhu Du and Yi Pan. Searching Genome-wide Multi-locus Associations for Multiple Diseases Based on Bayesian Inference." Computational Biology and Bioinformatics, IEEE/ACM Transactions on (Accepted). (IF: 1.44) 6. Ding, Xiaojun, Jianxin Wang, Alexander Zelikovsky, Xuan Guo, Minzhu Xie, and Yi Pan. "Searching high-order SNP combinations for complex diseases based on energy distribution difference." Computational Biology and Bioinformatics, IEEE/ACM Transactions on, vol. PP, no.99, (2014):1, 1. (IF: 1.44) 7. Zeng, Tao, Xuan Guo, and Juan Liu. "Negative correlation based gene markers identification in integrative gene expression data." International Journal of Data Mining and Bioinformatics 10, no. 1 (2014): (IF: 0.933) 8. Guo, Xuan, Bing Liu, Le Chen, Guantao Chen, Yi Pan and Jing Zhang. "Bayesian Inference for Functional Dynamics Exploring in fmri Data." Computational Methods for Neurological Disorders and Psychiatric Diseases (Accepted). (IF:0.766) 9. Guo, Xuan, Ning Yu, Feng Gu, Xiaojun Ding, Jianxin Wang, and Yi Pan. "Genome-wide Interactionbased Association of Human Diseases A Survey." Tsinghua Science and Technology 19.6 (2014): Refereed Conferences/Workshops Publications

4 Books 1. Yu, Ning, Xuan Guo, Alexander Zelikovsky, and Yi Pan. "GaussianCpG: A Gaussian model for detection of human CpG Island." In Computational Advances in Bio and Medical Sciences (ICCABS), 2015 IEEE 5th International Conference on, pp IEEE, Yu, Ning, Feng Gu, Xuan Guo, and Zaobo He. "A fine-grained flow control model for cloud-assisted data broadcasting." In Proceedings of the 18th Symposium on Communications & Networking, pp Society for Computer Simulation International, Lian, Zhichao, Xiang Li, Yi Pan, Xuan Guo, Le Chen, Guantao Chen, Zhihui Wei, Tianming Liu, and Jing Zhang. "Dynamic Bayesian brain network partition and connectivity change point detection." In Computational Advances in Bio and Medical Sciences (ICCABS), 2015 IEEE 5th International Conference on, pp IEEE, Guo, Xuan, Jing Zhang, Zhipeng Cai, Ding-Zhu Du, and Yi Pan. "DAM: A Bayesian Method for Detecting Genome-wide Associations on Multiple Diseases." In Bioinformatics Research and Applications, pp Springer International Publishing, Yu, Ning, Xuan Guo, Feng Gu, and Yi Pan. "DNA AS X: An Information-Coding-Based Model to Improve the Sensitivity in Comparative Gene Analysis." In Bioinformatics Research and Applications, pp Springer International Publishing, Guo, Xuan, Xiaojun Ding, Yu Meng, and Yi Pan. "Cloud computing for de novo metagenomic sequence assembly." In Bioinformatics Research and Applications, pp Springer Berlin Heidelberg, Zeng, Tao, Xuan Guo, and Juan Liu. "Discovering negative correlated gene sets from integrative gene expression data for cancer prognosis." In Bioinformatics and Biomedicine (BIBM), 2010 IEEE International Conference on, pp IEEE, Guo, Xuan. "Chapter 1: Cloud Computing for NGS Data Analysis." In Computational Methods for Next Generation Sequencing Data Analysis (Wiley Series in Bioinformatics), Nguyen, Ken, Xuan Guo and Yi Pan. "Multiple Biological Sequence Alignment: Scoring Functions, Algorithms and Applications." Wiley (In press). ORAL PRESENTATIONS 1. DAM: A Bayesian Method for Detecting Genome-wide Associations on Multiple Diseases, Presentation, International Symposium on Bioinformatics Research and Applications (ISBRA), Norfolk, Virginia, May Cloud computing for detecting high-order genome-wide epistatic interaction via dynamic clustering, Presentation, the 2014 Molecular Basis of Disease Research Day, Georgia State University, Atlanta, May Cloud computing for de novo metagenomic sequence assembly, Presentation, International Symposium on Bioinformatics Research and Applications (ISBRA), Charlotte, North Carolina, May POSTERS 1. Xuan Guo, Ken Nguyan, Yu Meng, and Yi Pan. Cloud computing for detecting epistases interaction in genome-wide case-control studies assembly, IBM University Day, Durham, North Carolina, October 2013

5 2. Xuan Guo, Xiaojun Ding, Yu Meng, and Yi Pan. Cloud computing for de novo metagenomic sequence assembly, The 2013 Molecular Basis of Disease Research Day, Atlanta, Georgia, May 2013 PROFESSIONAL ACTIVITIES Editorial assistant for InderScience Journal Volunteer leader for The 20 th International Computing and Combinatorics Conference (COCOON 14) Volunteer leader for 2013 IEEE/WIC/ACM International Conference on Web Intelligence (WI 13) and Intelligent Agent Technology (IAT 13) Volunteer leader for the 2 nd International IBM Cloud Academy Conference (ICA CON 2014) Volunteer leader for The 2011 IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2011) Referee for IEEE/ACM Transactions on Computational Biology and Bioinformatics Referee for International Symposium on Bioinformatics Research and Applications (ISBRA) 2014 Special Issue on BMC Bioinformatics Referee for The 34 th Annual IEEE International Conference on Computer Communications (INFOCOM'15) Referee for Computers in Biology and Medicine Referee for International Journal of Cloud Computing Referee for the IEEE/Transactions on Nano Bioscience Referee for Tsinghua Science and Technology Special Issue MEMBERSHIP Student Member of ACM, IEEE.