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Ping Ye

Ping Ye


Adjunct Associate Professor

Office Building

Avera Health & Science Center



Mailing Address

South Dakota State University
Pharmacy & Allied Health Professions
SAV 165, Box 2202C
Brookings, SD 57007

Avera Research Institute Center for Pediatric & Community Research
Avera McKennan Hospital & University Health Center
6001 South Sharon Ave., Suite 2
Sioux Falls, SD 57108


Postdoctoral Fellow, Department of Biomedical Engineering, Johns Hopkins University
Ph.D., Department of Microbiology and Immunology, University of Michigan
M.S., Institute of Virology, Chinese Center for Disease Control and Prevention
M.B., School of Public Health, Peking University Health Science Center

Academic Interests/Expertise

I am interested in integrating and analyzing “big data” from biological systems, and specialized in various computational approaches, including data mining, machine learning, NextGen sequencing data analyses, agent-based models, metabolic network models, ordinary differential equations, and probabilistic graphical models. Currently, my research efforts focus on identifying the relationship between prenatal environmental exposures, epigenetic alternations, and long-term outcomes of child development and reproduction.

Academic Responsibilities

PHA 738: Health Informatics
This course will introduce health professions graduate students to the field of health informatics. Students will explore a diverse range of topics including electronic health records, clinical decision support, telehealth, and regulatory issues.

Awards and Honors

MacNeal Distinguished Dissertation Award. University of Michigan.


NIH R03HD079723, Computer simulations of the mouse spermatogenic cycle. Role: PI.

March of Dimes Basil O'Connor Starter Scholar Research Award, Elucidating meiotic initiation pathways in mammals. Role: PI.

NIH R01GM112864, Mechanisms of Fork Restart in Response to Genotoxic Stress. Role: Co-I (in charge of next-generation sequencing data analyses).

Professional Memberships

Society for Mathematical Biology
International Society for Computational Biology

Work Experience

Grant reviewer
2018 Ad hoc reviewer, Breast Cancer Now’s research grants, UK
2018 Member, NIH NICHD National Centers for Translational Research in Reproduction & Infertility (P50) special emphasis panel
2017 Member, NIH NICHD Integrative Research in Gynecology Health (R01) special emphasis panel
2017 Ad hoc reviewer, National Natural Science Foundation of China, China
2014-present Standing member, NIH NICHD Reproduction, Andrology and Gynecology study section
2014 Member, NIH NICHD Reproduction, Andrology and Gynecology study section
2008 Ad hoc reviewer, The Wellcome Trust project grant, UK
2004 Ad hoc reviewer, The Aids Fonds Netherlands research grant, Netherlands

Journal article reviewer
Nature Protocols, Scientific Reports, BMC Genomics, Biology of Reproduction, Molecular Reproduction and Development, PLoS ONE, Bulletin of Mathematical Biology, BMC Bioinformatics, PLoS Computational Biology, Pediatric and Developmental Pathology, Mathematical Biosciences and Engineering, HIV Medicine, Journal of Antimicrobial Chemotherapy

Society position
2017-present Secretary, Society for Mathematical Biology
2014-2016 Member, Trainee Affairs Committee, American Society of Andrology

Research Scientist
Department of Defense Biotechnology High Performance Computing Software Applications Institute, Frederick, MD

Assistant Professor
School of Molecular Biosciences, Washington State University, Pullman, WA



NCBI My Bibliography