Center for Reproductive Biology

Participating Faculty


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Name: Ping Ye
Department: School of Molecular Biosciences
Credentials: 2003~Ph.D. University of Michigan - Microbiology and Immunology
Office: Biotechnology Life Sciences 431
Phone: 509-335-8258
Fax: 509-335-4159
Mailing Address: School of Molecular Biosciences
PO Box 647520
Pullman, WA 99164-7520
E-mail: pye@wsu.edu

Research Interests

Systems Biology

Research Summary

My laboratory applies computational and experimental approaches to quantitatively understand systematic behaviors of cellular responses to external perturbations. We are interested in defining the structure and dynamics of functional pathways when cells experience environmental stimuli, such as temperature change. We are particularly interested in investigating the complexities of meiosis dynamics. Our ultimate goal is to create an integrated digital image of how cells operate under external perturbations over multiple temporal and spatial scales. We aim to achieve this goal through high-throughput and low-throughput data acquisition and integration, followed by computational prediction and experimental validation. We apply a two-pronged computational approach, bioinformatics data mining and mechanistic mathematical modeling. Our main experimental systems include unicellular eukaryote yeast and cultured mammalian cell culture.

Research Publications

2005-2009

Ye P, Dymond JD, Shi X, Lam KS, Lin Y, Pan X, Boeke JD, Bader JS. Predicting temperature sensitive mutations. Genetics (in revision).

Zheng P, Griswold MD, Hassold TJ, Hunt PA, Small CL, Ye P. Predicting Meiotic Pathways in Human Fetal Oogenesis. Biology of Reproduction (revision submitted).

Stuart LM, Boulais J, Charriere GM, Hennessy EJ, Brunet S, Jutras I, Goyette G, Rondeau C, Letarte S, Huang H, Ye P, Morales F, Kocks C, Bader JS, Desjardins M, Ezekowitz RA. A systems biology analysis of the Drosophila phagosome. Nature, 2007, 445, 95-101.

An W, Han JS, Wheelan SJ, Davis ES, Coombes CE, Ye P, Triplett C, Boeke JD. Active retrotransposition by a synthetic L1 element in Mice. PNAS, 2006, 103, 18662-18667.

Pan X, Ye P, Yuan DS, Wang X, Bader JS, Boeke JD. A DNA integrity network in the yeast Saccharomyces cerevisiae. Cell, 2006, 124, 1069-1081.

Ooi SL, Pan X, Peyser BD, Ye P, Meluh PB, Yuan DS, Irizarry RA, Bader JS, SpencerFA, Boeke JD. Global synthetic-lethality analysis and yeast functional profiling. Trends in Genetics, 2006, 22(1), 56-63.

Ye P, Peyser BD, Pan X, Boeke JD, Spencer FA, Bader JS. Gene function prediction from congruent synthetic lethal interactions in yeast. Molecular Systems Biology, 2005, 1:2005.0026.

Ye P, Peyser BD, Spencer FA, Bader JS. Commensurate distances and similar motifs in genetic congruence and protein interaction networks in yeast. BMC Bioinformatics, 2005, 6:270

Ye P, Kourtis AP, Kirschner DE. Reconstitution of thymic function in HIV-1 patients treated with highly active anti-retroviral therapy. Clinical Immunology, 2003, 106(2), 95-105.

Ye P, Kirschner DE. Reevaluation of T cell receptor excision circles as a measure of human recent thymic emigrants. Journal of Immunology, 2002, 168(10), 4968-4979.


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