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Zhiwu Zhang

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
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Curriculum Vitae
EDUCATION 1995-1998 Ph.D., Statistical Genetics Michigan State University, East Lansing, Michigan, USA Dissertation: Power and accuracy of detecting linkage between quantitative trait loci and genetic markers 1988-1991 Ph.D., Animal Breeding and Genetics Northeast Agricultural University, Harbin, China Dissertation: Theory of genetic resources conservation and its application in Chinese Swine populations 1985-1988 M.S., Animal Breeding and Genetics Jilin Agricultural University, Changchun, China Dissertation: The method of minimizing inbreeding in domestic animals 1978-1982 B.S., Animal Science Jilin Agricultural University, Changchun, China POSITIONS HELD 2014-Present Assistant Professor Department of Crop and Soil Sciences, Washington State University, Pullman, WA, USA 2011-2013 Senior Research Associate Institute for Genomic Diversity, Cornell University, Ithaca, NY, USA 2002-2010 Research Associate Department of Animal Science (2002-2005) and Institute for Genomic Diversity (2006-2010), Cornell University, Ithaca, NY, USA 1998-2001 Postdoctoral Fellow Department of Animal Science, Cornell University, Ithaca, NY, USA 1993-1994 Associate Professor Institute of Animal Science, Chinese Academy of Agricultural Science, Beijing, China 1991-1993 Assistant Professor

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
2 Institute of Animal Science, Chinese Academy of Agricultural Science, Beijing, China 1982-1985 Lecturer Jilin Agricultural College, Jilin, China PUBLICATION (*CORRESPONDING AUTHOR) 44. Li C, Li Y, Bradbury PJ, Wu X, Shi Y, Song Y, Zhang D, Rodgers-Melnick E, Buckler ES, Zhang Z, Li Y, Wang T: Construction of high-quality recombination maps with low- coverage genomic sequencing for joint linkage analysis in maize. BMC Biol 2015, 13:78. 43. Yingpeng Han, Xue Zhao, Dongyuan Liu, Yinghui Li, David A. Lightfoot, Zhijiang Yang, Lin Zhao, Gang Zhou, Zhikun Wang, Long Huang, Zhiwu Zhang, Lijuan Qiu, Hongkun Zheng, Wenbin Li: Domestication footprints anchor genomic regions of agronomic importance in soybeans. New Phytologist 2015, 10.1111/nph.13626. 42. Jiang Z, Zhou X, Li R, Michal JJ, Zhang S, Dodson M V., Zhang Z, Harland RM: Whole transcriptome analysis with sequencing: methods, challenges and potential solutions. Cell Mol Life Sci 2015, 72:3425–3439. 41. Li C, Y Li, Y Shi, Y Song, D Zhang, ES Buckler, Z Zhang, T Wang, Y Li: Genetic Control of the Leaf Angle and Leaf Orientation Value as Revealed by Ultra-High Density Maps in Three Connected Maize Populations. PLoS One 2015, 10(3): DOI: 10.1371/journal.pone.0121624 40. Wang Q, Tian F, Pan Y, Buckler ES, *Zhang Z: A SUPER Powerful Method for Genome Wide Association Study. PLoS One 2014, 9:e107684. 39. Li M, Liu X, Bradbury P, Yu J, Zhang Y-M, Todhunter RJ, Buckler ES, *Zhang Z: Enrichment of statistical power for genome-wide association studies. BMC Biol 2014, 12:73. 38. Yang Y, Wang Q, Chen Q, Liao R, Zhang X, Yang H, Zheng Y, *Zhang Z, *Pan Y: A new genotype imputation method with tolerance to high missing rate and rare variants. PLoS One 2014, 9. 37. Peiffer JA, Romay MC, Gore MA, Flint-Garcia SA, Zhang Z, Millard MJ, Gardner CAC, McMullen MD, Holland JB, Bradbury PJ, Buckler ES: The genetic architecture of maize height. Genetics 2014, 196:1337–1356.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
3 36. Caniato FF, Hamblin MT, Guimaraes CT, Zhang Z, Schaffert RE, Kochian L V., Magalhaes J V.: Association mapping provides insights into the origin and the fine structure of the sorghum aluminum tolerance locus, AltSB. PLoS One 2014, 9. 35. Boyko A, Brooks S, Behan-Braman A, Castelhano M, Corey E, Oliveira K, Swinburne J, Todhunter R, Zhang Z, Ainsworth D, Robinson N: Genomic analysis establishes correlation between growth and laryngeal neuropathy in Thoroughbreds. BMC Genomics 2014, 15:259. 34. Hou Y, Wang Y, Lu X, Zhang X, Zhao Q, Todhunter RJ, *Zhang Z: Monitoring Hip and Elbow Dysplasia Achieved Modest Genetic Improvement of 74 Dog Breeds over 40 Years in USA. PLoS One 2013, 8:e76390. 33. Chen Q, Ma Y, Yang Y, Chen Z, Liao R, Xie X, Wang Z, He P, Tu Y, Zhang X, Yang C, Yang H, Yu F, Zheng Y, Zhang Z, Wang Q, Pan Y: Genotyping by Genome Reducing and Sequencing for Outbred Animals. PLoS One 2013, 8. 32. Nelson SA, Krotscheck U, Rawlinson J, Todhunter RJ, Zhang Z, Mohammed H: Long- Term Functional Outcome of Tibial Plateau Leveling Osteotomy Versus Extracapsular Repair in a Heterogeneous Population of Dogs. Vet Surg 2013, 42:38–50. 31. Lipka AE, Tian F, Wang Q, Peiffer J, Li M, Bradbury PJ, Gore MA, Buckler ES, *Zhang Z: GAPIT: genome association and prediction integrated tool. Bioinformatics 2012, 28:2397–2399. 30. Duan F, Ogden D, Xu L, Liu K, Lust G, Sandler J, Dykes NL, Zhu L, Harris S, Jones P, Todhunter RJ, Zhang Z: Principal component analysis of canine hip dysplasia phenotypes and their statistical power for genome-wide association mapping. J Appl Stat 2012, 40:235–251. 29. Chia JM, Song C, Bradbury PJ, Costich D, de Leon N, Doebley J, Elshire RJ, Gaut B, Geller L, Glaubitz JC: Maize HapMap2 identifies extant variation from a genome in flux. Nat Genet 2012, 44:803–807. 28. Guo T, Li H, Yan J, Tang J, Li J, Zhang Z, Zhang L, Wang J: Performance prediction of F1 hybrids between recombinant inbred lines derived from two elite maize inbred lines. Theor Appl Genet Appl Genet 2013, 126:189–201. 27. Zhu L, Chen S, Jiang Z, Zhang Z, Ku H-C, Li X, McCann M, Harris S, Lust G, Jones P, Todhunter R: Identification of quantitative trait loci for canine hip dysplasia by two sequential multipoint linkage analyses. J Appl Stat 2012:1719–1731.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
4 26. Fitzpatrick CL, Krotscheck U, Thompson MS, Todhunter RJ, Zhang Z: Evaluation of Tibial Torsion in Yorkshire Terriers with and without Medial Patellar Luxation. Vet Surg 2012, 41:966–972. 25. Guo G, Zhou Z, Wang Y, Zhao K, Zhu L, Lust G, Hunter L, Friedenberg S, Li J, Zhang Y, Harris S, Jones P, Sandler J, Krotscheck U, Todhunter R, *Zhang Z: Canine hip dysplasia is predictable by genotyping. Osteoarthr Cartil 2011, 19:420–429. 24. Setter TL, Yan J, Warburton M, Ribaut JM, Xu Y, Sawkins M, Buckler ES, Zhang Z, Gore MA: Genetic association mapping identifies single nucleotide polymorphisms in genes that affect abscisic acid levels in maize floral tissues during drought. J Exp Bot 2010, 62:701–716. 23. Friedenberg SG, Zhu L, Zhang Z, van den Berg Foels W, Schweitzer PA, Wang W, Fisher PJ, Dykes NL, Corey E, Vernier-Singer M, Foels WB, Jung SW, Sheng X, Hunter LS, McDonough SP, Lust G, Bliss SP, Krotscheck U, Gunn TM, Todhunter RJ: Evaluation of a fibrillin 2 gene haplotype associated with hip dysplasia and incipient osteoarthritis in dogs. Am J Vet Res 2011, 72:530–540. 22. *Zhang Z, Ersoz E, Lai CQ, Todhunter RJ, Tiwari HK, Gore MA, Bradbury PJ, Yu J, Arnett DK, Ordovas JM, Buckler ES: Mixed linear model approach adapted for genome-wide association studies. Nat Genet 2010, 42:355–360. 21. Zhou Z, Sheng X, *Zhang Z, Zhao K, Zhu L, Guo G, Friedenberg SG, Hunter LS, Vandenberg-Foels WS, Hornbuckle WE, Krotscheck U, Corey E, Moise NS, Dykes NL, Li J, Xu S, Du L, Wang Y, Sandler J, Acland GM, Lust G, Todhunter RJ: Differential genetic regulation of canine hip dysplasia and osteoarthritis. PLoS One 2010, 5:e13219. 20. Hou Y, Wang Y, Lust G, Zhu L, *Zhang Z, Todhunter RJ: Retrospective analysis for genetic improvement of hip joints of cohort labrador retrievers in the United States: 1970-2007. PLoS One 2010, 5:e9410. 19. Huang X, Wei X, Sang T, Zhao Q, Feng Q, Zhao Y, Li C, Zhu C, Lu T, Zhang Z, Li M, Fan D, Guo Y, Wang A, Wang L, Deng L, Li W, Lu Y, Weng Q, Liu K, Huang T, Zhou T, Jing Y, Lin Z, Buckler ES, Qian Q, Zhang QF, Li J, Han B: Genome-wide association studies of 14 agronomic traits in rice landraces. Nat Genet 2010, 42:961–967. 18. Zhang N, Gibon Y, Gur A, Chen C, Lepak N, Höhne M, Zhang Z, Kroon D, Tschoep H, Stitt M, Hohne M, Buckler E: Fine quantitative trait loci mapping of carbon and nitrogen metabolism enzyme activities and seedling biomass in the maize IBM mapping population. Plant Physiol 2010, 154:1753–1765.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
5 17. *Zhang Z, Buckler ES, Casstevens TM, Bradbury PJ: Software engineering the mixed model for genome-wide association studies on large samples. Br Bioinform 2009, 10:664–675. 16. Zhang Z, Zhu L, Sandler J, Friedenberg SS, Egelhoff J, Williams AJ, Dykes NL, Hornbuckle W, Krotscheck U, Moise NS, Lust G, Todhunter RJ: Estimation of heritabilities, genetic correlations, and breeding values of four traits that collectively define hip dysplasia in dogs. Am J Vet Res 2009, 70:483–492. 15. Zhang Z, Li CX, Todhunter RJ, Lust G, Goonewardene L, Wang ZQ: An algorithm to sort complex pedigrees chronologically without birthdates. J Anim Vet Adv 2009, 8:177–182. 14. Buckler ES, Holland JB, Bradbury PJ, Acharya CB, Brown PJ, Browne C, Ersoz E, Flint- Garcia S, Garcia A, Glaubitz JC, Goodman MM, Harjes C, Guill K, Kroon DE, Larsson S, Lepak NK, Li H, Mitchell SE, Pressoir G, Peiffer JA, Rosas MO, Rocheford TR, Romay MC, Romero S, Salvo S, Sanchez Villeda H, da Silva HS, Sun Q, Tian F, Upadyayula N, et al.: The genetic architecture of maize flowering time. Science (80- ) 2009, 325:714–718. 13. Myles S, Peiffer J, Brown PJ, Ersoz ES, Zhang Z, Costich DE, Buckler ES: Association Mapping: Critical Considerations Shift from Genotyping to Experimental Design. Plant Cell 2009, 21:2194–2202. 12. Yu J, Zhang Z, Zhu C, Tabanao DA, Pressoir G, Tuinstra MR, Kresovich S, Todhunter RJ, Buckler ES: Simulation Appraisal of the Adequacy of Number of Background Markers for Relationship Estimation in Association Mapping. Plant Genome 2009, 2:63–77. 11. Zhu L, Zhang Z, Friedenberg S, Jung SW, Phavaphutanon J, Vernier-Singer M, Corey E, Mateescu R, Dykes N, Sandler J, Acland G, Lust G, Todhunter R: The long (and winding) road to gene discovery for canine hip dysplasia. Vet J 2009, 181:97–110. 10. Zhu L, Zhang Z, Feng F, Schweitzer P, Phavaphutanon J, Vernier-Singer M, Corey E, Friedenberg S, Mateescu R, Williams A, Lust G, Acland G, Todhunter R: Single nucleotide polymorphisms refine QTL intervals for hip joint laxity in dogs. Anim Genet 2008. 9. Mateescu RG, Burton-wurster NI, Tsai K, Phavaphutanon J, Zhang Z, Murphy KE, Lust G, Todhunter RJ: Identification of quantitative trait loci for osteoarthritis of hip joints in dogs. AJVR 2008, 69:1294–1300. 8. Zhang Z, Todhunter RJ, Buckler ES, Van Vleck LD: Technical note: Use of marker-based relationships with multiple-trait derivative-free restricted maximal likelihood. J Anim Sci 2007, 85:881–885.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
6 7. Bradbury PJ, Zhang Z, Kroon DE, Casstevens TM, Ramdoss Y, Buckler ES: TASSEL: software for association mapping of complex traits in diverse samples. Bioinformatics 2007, 23:2633–2635. 6. Liu T, Todhunter RJ, Wu S, Hou W, Mateescu R, Zhang Z, Burton-Wurster NI, Acland GM, Lust G, Wu R: A random model for mapping imprinted quantitative trait loci in a structured pedigree: an implication for mapping canine hip dysplasia. Genomics 2007, 90:276–284. 5. Hays L, Zhang Z, Mateescu RG, Lust G, Burton-Wurster NI, Todhunter RJ: Quantitative genetics of secondary hip joint osteoarthritis in a Labrador Retrieverâ€��Greyhound pedigree. Am J Vet Res 2007, 68:35–41. 4. Michal JJ, Zhang ZW, Gaskins CT, Jiang Z: The bovine fatty acid binding protein 4 gene is significantly associated with marbling and subcutaneous fat depth in Wagyu x Limousin F2 crosses. Anim Genet 2006, 37:400–402. 3. Todhunter RJ, Mateescu R, Lust G, Burton-Wurster NI, Dykes NL, Bliss SP, Williams AJ, Vernier-Singer M, Corey E, Harjes C: Quantitative trait loci for hip dysplasia in a crossbreed canine pedigree. Mamm Genome 2005, 16:720–730. 2. Mateescu RG, Zhang Z, Tsai K, Phavaphutanon J, Burton-Wurster NI, Lust G, Quaas R, Murphy K, Acland GM, Todhunter RJ: Analysis of allele fidelity, polymorphic information content, and density of microsatellites in a genome-wide screening for hip dysplasia in a crossbreed pedigree. J Hered 2005, 96:847–853. 1. Dikeman ME, Pollak EJ, Zhang Z, Moser DW, Gill CA, Dressler EA: Phenotypic ranges and relationships among carcass and meat palatability traits for fourteen cattle breeds , and heritabilities and expected progeny differences for Warner-Bratzler shear force in three beef cattle breeds The online version of this article. J Anim Sci 2005, 83:2461– 2467. PUBLICATION IN CHINESE 18. Sun B, Chen Y, Xu S, Zhang Z: Effect of Simmentalas sire line on linear type traits in crossbreeding with Mongolian cattle. Acta Vet Zootech Sin 1998, 29:221–224. 17. Meng A, Qi S, Yu R, Wang R, Cai Z, Jiao Sh, Xin C, Zhang Z: Analysis of DNA fingerprints of Fengjing Pig and Xiang Pig. Hereiditas 1995, 17:19–22. 16. Zhang Z, Tao L, Zhou M, Xu X, Zhang Y: A management system to improve accuracy of milk yield. J Chinese Dairy Sci 1994:14–16.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
7 15. Tang D, Zhang Z, Xu S: Path analysis on AKP, Ca and P in serum and milk composition in Simmental cattle. J Gansu Anim Sci 1994:8–11. 14. Wang Y, Xu S, Zhang Z, Lu J: Effect of interval and antispeptics on milk composition. J Chinese Dairy Sci 1994:45–48. 13. Zhang Z, Sheng Z: A mathemetical model of systemic conservation of livestock genetic resources and applications. Acta Vet Zootech Sin 1994, 25:306–310. 12. Zhang Z, Yu R, Wang R, Fang Z, Zheng Y: Estimates of gene effects and effective gene number on litter size in pig. Acta Genet Sin 1994, 21:275–280. 11. Xu S, Zhang Z, Wan Y, Cai M, Zhao C: A systemic mdol of conservation, selection and utilization of Fuzhou Cattle. J Chinese Beef 1993, 68:15–8. 10. Zhang Z, Tang D, Xu S, Lu J, Wang Y, Wang Y, Yang L, Shao Z, Jian E, Qian S, Liu Y, Zhang ZX: The distribution of AKP, Ca and P in Serum of Simmental cattle. J Chinese Dairy Sci 1993:40–44. 9. Zhang Z: Modeling of Eco-Breeding system in livestock. Eco Agric Res 1993:48–51. 8. Tang D, Zhang Z, Xu S, Lu J, Wang Y, Yang X: The Relationship between blood serum amylase and milk coposition. J Chinee Beef 1993, 64:20–22. 7. Zhang Z, Sheng Z, Feng W: Strategies and scheme to conserve genetic resources of Chinese Pigs. Chinese J Anim Sci 1993, 29:5–7. 6. Zhang Z: A statistical method for standerdized transability. J Chinese Simmental Cattle 1993:37–39. 5. Zhang Z: Decision support system of screening pig breed for conservation. Comput Appl Agric 1993:27–30. 4. Zhang Z, Cai Y, He Y, Jin X: Group mating model with quadrtic program and its application in minimizing inbreeding. Chinese Acta Vet Zootech 1991, 22:42–48. 3. Zhang Z: Recursive algorithm to calculate individual relationship. J Northest Agric Univ 1991, 22:231–235. 2. Zhao G, Zhang Z, Cai Y, He Y, Jin X: A method of non-linear estimate of effective size of Min Pig population conserved. Heilongjiang Anim Vet Sci 1990:5–6. 1. Zhang Z, Cai Y, He Y, Jin X: Minimizing inbreeding of population by selecting mating pairs. J Jilin Agric Univ 1990, 12:61–65.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
8 INVITED PRESENTATIONS 2015 Agricultural Genomics 2015 — from Variation to Improved Production: Saving the Babies from Bathwater in Genome Wide Association Studies, November 16-18, 2015, Shenzhen, China.
http://www.nature.com/natureconferences/ag2015/speakers.html
Plant and Animal Genomics XX (Statistical Genomics Workshop): Getting Power Back from Population Structure and Kinship in Genome-Wide Association Studies. April 11. https://pag.confex.com/pag/xxiii/webprogram/Session2712.html 2014 Presentation Series from Experts: Dissecting Genetic Architecture of Complex Traits. April 9, 2014, Heilongjiang Academy of Agricultural Science, Harbin, China 2013 Plant and Animal Genomics XX (Statistical Genomics Workshop): Kinship Evolution for Genome Prediction and Association Study. January 13.
https://pag.confex.com/pag/xxi/webprogram/Session1586.html
2012 Plant and Animal Genomics XX (Statistical Genomics Workshop): Integration of genome association and prediction. January 15.
https://pag.confex.com/pag/xx/webprogram/Session1069.html
2011 Najing Agricultural University, Soybean Improvement Center: Integration of genome association and prediction. July 5 China Agricultural University, Maize Improvement Center: Advances of statistical methods for genome wide association study. July 2 2010 Cornell University Center for Vertebrate Genomics: Canine dysplasia is predictable by genotyping. November 9 6th SJTU_CU Workshop on Modern Agriculture and Biotechnology, Shanghai, China: Adaptation of mixed model for Genome-wide association study. October 9-11 Center for Agricultural biotechnology, Kasetsart Unversity, Kamphaeng Saen Campus, Thailand: Adaptation of mixed model for Genome-wide association study. March 20 Plant Breeding for Commercial Organization Workshop, Kasetsart Unversity, Kamphaeng Saen Campus, Thailand: Molecular Breeding. March 22 2009 Department of Agronomy, University of Nebraska, Lincoln, Nebraska: Adaptation of Mixed model for Genome-wide association study. November 20 2008 Nutrition and Genomics Laboratory, JM-USDA Human Nutrition Research Center on Aging at Tufts University, Boston, Massachusetts: Mixed model for Genome-wide association study. November 14 2007 62nd Northeastern Corn Improvement Conference. Cornell University, Ithaca, New York: Association Mapping by Using TASSEL software to Incorporate Background QTL Effect. February 16. 2006 USDA Plant Breeding Workshop. Lubbock,Taxas: QTL Mapping. October 26.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
9 AD HOC REVIEWER Nature Genetics Genetics Nature Method Heredity PNAS Animal Genetics Annals of Human Genetics Bioinformatics Annals of Applied Statistics Journal of Animal Science PLoS Genetics PLoS One BOOK CHAPTERS Mateescu RG, Tsai K, Zhang Z, Burton-Wurster NI, Lust G, Dykes N, Acland GM, Quaas RL, Murphy K, Todhunter RJ. QTL Mapping Using Cross Breed Pedigrees: Strategies for Canine Hip Dysplasia. Cold Spring Harbor Press, In The Dog and Its Genome (ed E.A. Ostrander, U. Giger, K. Lindblad-Toh), Cold Spring Harbor Press. 2005. pp. 407-438. GRANTS 5/1/2015-12/31/2018 (PI)
Washington Grain Commission
��Intelligent Prediction and Association Tool to Facilitate Wheat Breeding�� $210,000 (direct cost). 1/1/2016-12/31/2019 (Co-PI, PI: Arron Carter)
USDA
��Next Generation Variety Development and Education for Grains, Apples, Alternative Crops, and Cool Season Legumes.�� $3,000,000. 1/1/2016-12/31/2019 (Co-PI, PI: Camille Steber)
USDA
��Molecular Genetic Architectures for increasing Preharvest Prouting Tolerance in white Wheat.�� $422,000. 1/30/2015-1/30/2016 (PI)
Emerging Research Issues at Washington State University
��A single step approach to map genes underlying phenotypes in multiple environments.�� $40,000 (direct cost). 5/1/2015-12/30/2015 (PI)
CAHNRS Undergraduate Internships at Washington State University
��Upgrading Software to Enhance Biological and Agricultural Research�� $6,500 (direct cost). 8/27/2011-8/26/2014 (Co-PI, PI: Dorothy Ainsworth)

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
10
HARRY M. ZWEIG MEMORIAL FUND
��The Genetic Basis of Recurrent Laryngeal Neuropathy (RLN) in Thoroughbreds�� $297,000. 12/01/2008-11/20/2010 (Co-PI, PI: Rory Todhunter) National Institutes of Health (1R21AR055228-01A1) ��Fibrillin 2 and Developmental Genetics of Hip Dysplasia in a Canine Model�� $225,000 (direct costs). 4/20/2008-4/19/2011 American Simmental Association ��Multiple Breed Genetic Evaluation System��, $35,000 annual direct costs. Role: PI 4/20/2005-4/19/2008 (PI) American Simmental Association ��Multiple Breed Genetic Evaluation System��, $25,000 annual direct costs. 07/01/2006-6/30/2007 (Co-PI, PI: Rory Todhunter) Cornell Advanced Technology - Biotechnology ��Incipient Events in Osteoarthritis: Models, Microarrays, SNPs, and Natural Diseases��. The major goal of this study is to (1) genotype dogs with and without hip osteoarthritis at SNP loci within 5 QTL associated with hip osteoarthritis and (2) to validate expression changes of genes involved in response of articular cartilage to load and ex vivo cartilage lesions detected with microarray analysis. $50,000 annual direct costs. 01/01/1993-12/31/1995 (PI) National Natural Science Foundation, China (39200088) The study on the genetic conservation for the population undergoing selection, Funded RMB 40,000. SOFTWARE DEVELOPED
• BLINK: Genome Association and Prediction Integrated Tool. More information is
provided at BLINK website: http://zzlab.net/blink
• GAPIT: Genome Association and Prediction Integrated Tool. More information is
provided at GAPIT website: http://zzlab.net/GAPIT
• TASSEL: The mixed model component for QTL association analysis to incorporate
kinship. More information is provided at TASSEL website:
http://www.maizegenetics.net/tassel
• MTDFREML – MTDFARM: To perform multiple trait genetic analysis using arbitrary
kinship including pedigree and marker based kinship.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
11
• SAS Macro LORG: The macro is for Proc Mixed to incorporate kinship for multiple
random effects and multiple traits. The source code and demo data can be downloaded at
http://www.maizegenetics.net/statistical-genetics.
• Incorporating external information into genetic evaluation using Bayesian approach. The
algorithm was implemented in the computer software: Beef Genetic Evaluation with Incorporation of External Information (Private: owned by American Simmental Association for official genetic evaluation)
• Multiple breed genetic evaluation for carcass traits (Private: owned by American
Simmental Association for official genetic evaluation)
• Determination of chronological identification without birth date. The algorithm was
implemented in SeqPed TEACHING Statistical Genomics (CROPS 512), 2015, Washington State University (Instructor) Applied Statistical Analysis (STSCI 501–502), 2008-2009, Cornell University (course project supervisor). Principal Components Analysis and Mixed Linear Model in SAS were taught. The project generated a publication on Journal of Applied Statistics (2012, 40:235– 251). USDA Workshop of QTL Association Analysis, 2006, Lubbock, TX (Instructor) Statistics for Biology (I and II), 1995-1997, Michigan State University, teaching assistant Biological Statistics, 1982-1985, Jilin Agricultural College (Instructor, three semesters) Genetics, 1982-1985, Jilin Agricultural College (Instructor, three semesters) RESEARCH ADVISEES Meng Huang: 2013-present, Postdoc, Research project: Genome-wide association study on complex traits. Guanghui Hu: 2013-present, Ph.D. student, Research project: Dissection of genetic architecture of cold tolerance in maize. Xiaolei Liu: 2013-present, Ph.D. student, Research project: Statistical method for genome-wide association study. Zhitong Yin: 2012-present, Visiting scholar. Research project: Genetic architecture of maize for salt tolerance. Yongxiang Li: 2012, Visiting scholar. Research project: Genome-wide association study for genetic resistance for northern and southern leaf blight in maize.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
12 Hu Wang: 2011-2012, Exchange student. Research project: High throughput phenomics by using spectral reflectance sensors. Alex Lipka: 2010-present, Postdoc. Research project: Development of R package for Genome Association and Prediction Integrated Tool. Qishan Wang: 2011, Visiting scholar. Research project: An improved mixed linear model for Genome-wide association study. The manuscript in the process of preparation. He is currently an associate professor at Shanghai Jiaotong University. Feiyan Yan: 2011, Visiting scholar. Research project: Evolution and domestication of Zea maize. She is currently the associate director at the Maize Institute of Guanxi province. Meng Li: 2009-present, Ph.D. student. The title of the publication is ��Enforcement of statistical power for GWAS by using compressed mixed linear model��, in preparation. Zhengkui Zhou: 2009-present, Ph.D. student. The title of the publication was ��Differential Genetic Regulation of Canine Hip Dysplasia and Osteoarthritis��, PLoS One 2010, 5(10): e13219. doi:10.1371/journal.pone.0013219. Xihui Sheng: 2009-2010, Ph.D. student. The title of the publication was ��Differential Genetic Regulation of Canine Hip Dysplasia and Osteoarthritis��. She is currently an assistant professor of genetics at Beijing Agriculture College. Yali Hou: 2007-2010, Ph.D. student. The title of the publication was ��Retrospective Analysis for Genetic Improvement of Hip Joints of Cohort Labrador Retrievers in the United States: 1970–2007��. PLoS One, 2010 5(2): e9410. Gang Guo: 2007-2010, Ph.D. student. The title of the publication was ��Canine Hip Dysplasia is Predictable by Genotyping��, Osteoarthritis and Cartilage, 2011, (19) 420-429. He is Research Scientist at Beijing Sanyuan Breeding Technology Co., Ltd. Dan Ogden: 2007-2009, Resident. The title of the publication was ��Principal Component Analysis of Canine Hip Dysplasia Phenotypes and Their Statistical Power for Genome-Wide Association Mapping��, Veterinary Surgery (submitted). He is currently an assistant professor of surgery at Louisiana State University.
Coursework
Michigan State University (Ph.D.) STT 441 Probability and Statistics-Probability: Probability models and basic statistics at an intermediate mathematical level. Discrete, continuous, univariate, and multivariate distributions. Random variables. Normal approximation. Sampling distributions, parameter estimation, and elementary tests of hypotheses. STT 442 Probability and Statistics- Statistics: Estimation, tests of hypotheses, confidence intervals. Goodness of fit, non-parametric methods. Linear models, multiple regression, ANOVA. STT 825 Sample surveys: Application of statistical sampling theory to survey designs. Simple random, stratified, and systematic samples. Sub-sampling, double sampling. Ratio and regression estimators.

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
13 STT 841 Linear Statistical Model: Probability models and basic statistics at an intermediate mathematical level. Discrete, continuous, univariate, and multivariate distributions. Random variables. Normal approximation. Sampling distributions, parameter estimation, and elementary tests of hypotheses. STT 842 Categorical data analysis: Analysis of categorical and ordinal data: contingency tables; chi square tests; exact tests; log-linear models; measures of association; logistic regression; generalized linear models. ANS 943 Techniques of Analyzing Unbalanced Research Data: Linear model techniques to analyze biological research data characterized by missing and unequal number of observations in classes. Simultaneous consideration of multiple factors. Prediction of breeding values and estimation of population parameters from variance and covariance components. Cornell University (Employee Continuing Education) COMS 211 Computer and Programming: Project course that introduces students to the ways of software engineering using the Java programming language. The course requires the design and implementation of several large programs. COMS 213 C++ Programming: An intermediate introduction to the C++ programming language and the C/C++ standard libraries. Topics include basic statements, declarations, and types; stream I/O; user-defined classes and types; derived classes, inheritance, and object-oriented programming; exceptions and templates. Recommended for students who plan to take advanced courses in computer science that require familiarity with C++ or C. COMS 280 Discrete Structures: Covers the mathematics that underlies most of computer science. Topics include mathematical induction; logical proof; propositional and predicate calculus; combinatorics and discrete mathematics; basic probability theory; basic number theory; sets, functions, and relations; partially ordered sets; and graphs. These topics are discussed in the context of applications to many areas of computer science, including game playing, the RSA cryptosystem, data mining, load balancing in distributed systems, properties of the Internet and World Wide Web, and web searching. COMS 381 Introduction to Theory of Computing: Introduction to the modern theory of computing: automata theory, formal languages, and effective computability. COMS 432 Introduction to Database Systems: Introduction to modern database systems. Concepts covered include storage structures, access methods, query languages, query processing and optimization, transaction management, recovery, database design, XML, and XQuery. The course focuses on the design and internals of modern database systems. COMS 482 Introduction to Analysis of Algorithms: Develops techniques used in the design and analysis of algorithms, with an emphasis on problems arising in computing applications. Example applications are drawn from systems and networks, artificial intelligence, computer vision, data mining, and computational biology. This course covers four major algorithm design techniques (greedy algorithms, divide-and-conquer, dynamic

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
14 programming, and network flow), computational complexity focusing on NP- completeness, and algorithmic techniques for intractable problems (including identification of structured special cases, approximation algorithms, and local search heuristics). COMS 501 Software Engineering: Introduction to the practical problems of specifying, designing, and building large, reliable software systems. Students work in teams on projects for real clients. This work includes a feasibility study, requirements analysis, object-oriented design, implementation, testing, and delivery to the client. Additional topics covered in lectures include professionalism, project management, and the legal framework for software development. NGL 288 Expository Writing: ENGL 288 offers guidance and an audience for students who wish to gain skill in expository writing—the common term for critical, reflective, and literary nonfiction. Each section provides a context for writing defined by a form of exposition, a disciplinary area, a practice, or a topic intimately related to the written medium. Course members will read in relevant published material and write and revise their own work regularly, while reviewing and responding to one another��s. Since these seminar-sized courses depend on members�� full participation, regular attendance and submission of written work are required. Students and instructors will confer individually throughout the semester. ENGLF 212 English as a Second Language-Research paper writing: For the major writing assignment of this course, students must have a real project that is required for their graduate work. This can be a thesis proposal; a pre-thesis; part of a thesis, such as the literature review or discussion section; a paper for another course or a series of shorter papers (by permission of the other instructor); or a paper for publication. Time limitations make it difficult to deal with work over 20 pages in length. Course work involves practice in paraphrase, summary, the production of cohesive, coherent prose, vocabulary use, and grammatical structure. Frequent individual conferences are a necessary part of the course. Separate sections for social sciences/humanities and for science/technology. AWARDS Recognition award from the Nature Publication Group for his contribution to referencing papers, 2012 Young Scientist Scholarship, The 5th World Congress of Genetics Applied to Livestock Production, Canadian International Development Agency, Canada (8/1994) Outstanding paper, National Natural Science Foundation, China, Dec, 1993 LEADERSHIP ACTIVITIES Advisor of Panda Coed Volleyball Cornell (http://sao.cornell.edu/SO/org/10-11/248)

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Zhiwu Zhang
Endowment Chair of Washington Grain Commission Department of Crop and Soil Sciences Washington State University 105 Johnson Hall Pullman, WA 99164, USA Email: Zhiwu.Zhang@WSU.edu Phone: (509) 335-2899
http://zzlab.net
15 Committee Member of Employee Assembly for Minorities, 2002-2003, Cornell University Committee Member of Employee Assembly for Communication, 2001-2002, Cornell University President of the Ph.D Graduate Student Association, 1988-1990, Northeast Agricultural University President of the Graduate Student Association, 1985-1987, Jilin Agricultural University COMMUNITY SERVICE Substitute Mathematics Teacher, 2007-2008, Northeast Elementary School, Ithaca Public School System, Ithaca, NY Volunteer Safety Guard for Public Skating, 2000-2002, The Rink at Lansing, NY HOBBIES Skiing, ice skating, rollerblading, fishing, hiking, biking, gardening, volleyball, tennis and photography
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