SparseAssembler (二代基因测序组装软件: Sparse k-mer Graph for Memory Efficient de novo Genome Assembly). The core algorithm (Sparse k-mer) was used in BGI’s SoapDenovo-II, the updated version of BGI’s flagship software SoapDenovo. Available at:
 Ye CX & ZS Ma (2016) Sparc: a sparsity-based consensus algorithm for long erroneous sequencing reads. PeerJ. 4:e2016; DOI 10.7717/peerj.2016 https://peerj.com/articles/2016/
 Ye CX, C Hill, J Ruan, ZS Ma (2016) DBG2OLC: Efficient Assembly of Large Genomes Using Long Erroneous Reads of the Third Generation Sequencing Technologies. http://www.nature.com/articles/srep31900
 Ma ZS, LW Li, Wendy Li, Jie Li, HJ Chen (2016) Integrated network-diversity analyses suggest suppressive effect of Hodgkin’s lymphoma and slightly relieving effect of chemotherapy on human milk microbiome. Scientific Reports, vol. 6, Article Number 28048, doi:10.1038/srep28048 http://www.nature.com/articles/srep28048
 Ma ZS et al. (2015) Network analysis suggests a potentially ‘evil’ alliance of opportunistic pathogens inhibited by a cooperative network in human milk bacterial communities. Scientific Reports 5, Article number: 8275 http://www.nature.com/articles/srep08275
 Ma ZS (2015) Power law analysis of the human microbiome. Molecular Ecology, vol. 24, DOI: 10.1111/mec.13394.
 Ma ZS (2015) Towards computational models of animal cognition, an introduction for computer scientists.Cognitive Systems Research 33:42-69
 Ma ZS (2015) Towards computational models of animal communication, an introduction for computer scientists. Cognitive Systems Research 33:70-99
 Ye CX, Hill C, Ruan J, Ma ZS* (2014). DBG2OLC: efficient assembly of large genomes using the compressed overlap graph.
 Ma, ZS, Liexun Yang, Ronald P. Neilson, Andrew Hess, Richard Millar (2014) A Survivability-Centered Research Agenda for Cloud Computing Supported Emergency Response and Management Systems. 17pp. The 35th IEEE-AIAA Aerospace Conference (Aerospace 2014), Big Sky, Montana, USA, March 7-15th, 2014. doi: 10.1109/AERO.2014.6836515
 Zhang ZG, Geng JW, Tang XD, Fan H, Xu JC, Wen XJ, ZS Ma*, P. Shi* (2014) Spatial heterogeneity and co-occurrence patterns of human mucosal associated intestinal microbiota. The ISME Journal, doi:10.1038/ismej.2013.185
 Ma, ZS (2013) Stochastic Populations, Power Law, and Fitness Aggregation in Genetic Algorithms. Fundamenta Informaticae, vol. 122, pp173-206.
 Ma, ZS (2013) First passage time and first passage percolation models for analyzing network resilience and effective strategies in strategic information warfare research. I. J. Information and Computer Security. 5(4): 334-358.
 Ma, ZS (2012) A unified definition for reliability, survivability and resilience inspired by the handicap principle and ecological stability. I. J. of Critical Infrastructures, 8(2):242-272.
 Ma, ZS. et al (2012). A Bird's Eye View of Microbial Community Dynamics. In “Microbial Ecological Theory: Current Perspectives.” Caister Academic Press, Editor: eds. by Lesley A. Ogilvie and Penny R. Hirsch.
 Ma, ZS (2012) A Note on Extending Taylor’s Power Law for Characterizing Human Microbial Communities: Inspiration from Comparative Studies on the Distribution Patterns of Insects and Galaxies, and as a Case Study for Medical Ecology and Personalized Medicine. http://adsabs.harvard.edu/abs/2012arXiv1205.3504M
 Ye, CX, ZS Ma, CH. Cannon, M Pop and DW. Yu. 2012.Exploiting sparseness in de novo genome assembly. BMC Bioinformatics, 13(Suppl 6):S1.
 Gajer, P, RM. Brotman, G Bai, J Sakamoto, UME Schütte, X Zhong, SSK Koenig, L Fu, ZS Ma, X Zhou, Z Abdo, LJ Forney and J Ravel. (2012) Temporal Dynamics of the Human Vaginal Microbiota.Science Translational Medicine. 4:(132): 132ra52.
 Ma, ZS & AW Krings (2011) Dynamic hybrid fault modeling and extended evolutionary Game theory for reliability, survivability and fault tolerance analyses.
IEEE Transactions on Reliability. vol. 60(1):180-196.
 Ma, ZS (2011) Ecological ‘theater’ for evolutionary computing ‘play’: some insights from population ecology and evolutionary ecology. I. Journal of Bio-Inspired Computing 4(1):31-55.
 Ma, ZS (2011) Did we miss some evidence of chaos in laboratory insect populations? Population Ecology, 53:405–412.
 Ma, ZS (2011) Frailty modeling for risk analysis in network security and survivability. I. J. Computer and Information Security, 4:276-294.
 Ma, ZS et al (2011). Insect navigation and communication in flight and migration: a potential model for joining and collision avoidance in MAVs (Micro-Aerial Vehicle) and mobile robots fleet control. Proc. of the 32nd IEEE-AIAA Aerospace Conference. 14pp, Big Sky, Montana, USA.
 Ma, ZS, et al (2011) Has the cyber warfare threat been overstated? A cheap talk game-theoretic perspective on the Google-hacking claim.The 7th Cyberspace Sciences and Information Intelligence Research Workshop, 7th CSIIRW11. October 14-16, 2011. Oak Ridge National Lab, Oak Ridge, USA.
 Ma, ZS (2010) Is Strategic Information Warfare Really Asymmetric? —a New Perspective from the Handicap Principle. Journal of Information Warfare, 9(3): 51-61.
 Ma, ZS (2010) Survival Analysis Approach to Life Table Analysis and Hypothesis Testing for Russian Wheat Aphid Populations. Bulletin of Entomological Research. vol. 100(3): 315-324
 Ma, ZS et al (2010) Logics in Animal Cognition: Are They Important to Brain Computer Interfaces (BCI) and Future Space Missions? Proc. 31st IEEE-AIAA Aerospace Conference 2010, 8pp. Big Sky, Montana, USA.
 Ma ZS (2010) An integrated approach to network intrusion detection with block clustering analysis, generalised logistic regression and linear discriminant analysis
 Ma ZS (2010) Towards an Extended Evolutionary Game Theory with Survival Analysis and Agreement Algorithms for Modeling Uncertainty, Vulnerability, and Deception. SpringerLecture Notes in Artificial Intelligence, vol. 5855, pp 608-618
 Ma ZS (2010) Towards a Population Dynamics Theory for Evolutionary Computing: Learning from Biological Population Dynamics in Nature.
Springer Lecture Notes in Artificial Intelligence, vol. 5855, pp 195-205
 Ma ZS (2010) A New Extended Evolutionary Game Theory Approach to Strategic Information Warfare Research. J. of Information Warfare, vol. 8(2).
 Ma, ZS et al (2011) Caring about trees in the forest: incorporating frailty in risk analysis for personalized medicine. Personalized Medicine, 8(6): 681-688
Previous publications in computer science may be found in DBLP and MathSciNet library:
Prof. Aaron Ellison Senior Research Fellow Fellow of the Ecological Society of America Harvard University, USA http://harvardforest.fas.harvard.edu/aaron-ellison Recipient of CAS PIFI (President’s International Fellowship Initiative) 美国哈佛大学 Aaron Ellison 教授
Prof. Sharron Quisenberry
Vice President of Research and Economic Development