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Ming-Shan Wang#, Rong-wei Zhang, Ling-Yan Su, Yan Li, Min-Sheng Peng, He-Qun Liu, Lin Zeng. David M Irwin, Jiu-Lin Du, Yong-Gang Yao, Dong-Dong Wu*, Ya-Ping Zhang*, Positive selection rather than relaxation of functional constraint drives the evolution of vision during chicken domestication. Cell Research, 1–18(2016).
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Ming-Shan Wang#, Yong-Xia Huo#, Yan Li, Newton O. Otecko, Ling-Yan Su, Hai-Bo Xu, Shi-Fang Wu, Min-Sheng Peng, He-Qun Liu, Lin Zeng, David M. Irwin, Yong-Gang Yao, Dong-Dong Wu*, and Ya-Ping Zhang*, Genomic Analyses Reveal Potential Independent Adaptation to High Altitude in Tibetan Chickens. Journal of Molecular Cell Biology, 8(6):542–552(2016).
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Dong-Dong Wu#, Ling-Qun Ye#, Yan Li#, Yan-Bo Sun, Yi Shao, Chun-yan Chen, Zhu Zhu, Li Zhong, Lu Wang, David M. Irwin, Yong E. Zhang, and Ya-Ping Zhang*, Integrative analyses of RNA-editing, alternative splicing and expression of young genes in human brain transcriptome by deep RNA-sequencing. Journal of Molecular Cell Biology, 1–12(2015).
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Yan Li#, Dong-Dong Wu#, Boyko, A. R., Guo-Dong Wang,Shi-Fang Wu, Irwin, D. M., Ya-Ping Zhang*, Population variation revealed high-altitude adaptation of Tibetan mastiffs. Molecular Biology and Evolution, 5:1200–1205(2014).
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Yan Li#, Guo-Dong Wang#, Ming-Shan Wang, David M. Irwin, Dong-Dong Wu*, and Ya-Ping Zhang*, Domestication of the dog from the wolf was promoted by enhanced excitatory synaptic plasticity: a hypothesis. Genome Biol Evol, 6(11):3115–3121(2014).
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Adiljan Kader#, Yan Li#, Kunzhe Dong, David M. Irwin, Qianjun Zhao, Xiaohong He, Jianfeng Liu, Yabin Pu, Neena Amatya Gorkhali, Xuexue Liu, Lin Jiang, Xiangchen Li, Weijun Guan, Yaping Zhang, Dong-Dong Wu*, Yuehui Ma*, Population Variation Reveals Independent Selection toward Small Body Size in Chinese Debao Pony, Genome Biology and Evolution, 8(1): 42-50(2016).
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Ming Li#*, Dong-Dong Wu#, Yong-Gang Yao, Yong-Xia Huo, Jie-Wei Liu, Bing Su, Daniel I. Chasman, Audrey Y. Chu, Tao Huang, Lu Qi, Yan Zheng, CHARGE Nutrition Working Group, DietGen Consortium, Xiong-Jian Luo, Recent Positive Selection Drives the Expansion of a Schizophrenia Risk Nonsynonymous Variant at SLC39A8 in Europeans, Schizophrenia Bulletin, 42(1): 178-190(2016).
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Dong-Dong Wu#, Xin Wang#, Yan Li#, Lin Zeng#, David M. Irwin,and Ya-Ping Zhang*,"Out of pollen" hypothesis for origin of new genes in flowering plants: study from Arabidopsis thaliana. Genome Biol Evol, .6(10):2822–2829(2014).
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Liang Ma, Dong-Dong Wu, Suk-Ling Ma, Li-wen Ta, Xiao-gang Chen, Nelson L.S. Tang*, Yong-Gang Yao*, Molecular evolution in the CREB1 signal pathway and a rare haplotype in CREB1 with genetic predisposition to schizophrenia. Journal of Psychiatric Research, 57:84–89 (2014).
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Yan Li#, Bridgett M. vonHoldt, Andy Reynolds, Adam R. Boyko, Robert K. Wayne, Dong-Dong Wu* and Ya-Ping Zhang*, Artificial selection on brain-expressed genes during the domestication of dog. Molecular Biology and Evolution, 30(8):1867–1876(2013).
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Qin-Wei Qiu#, Dong-Dong Wu, Li-Hua Yu, Ti-Zhen Yan, Wen Zhang, Zhe-Tao Li, Yan-Hui Liu, Ya-Ping Zhangand Xiang-Min Xu*, Evidence of recent natural selection on the Southeast Asian deletion (--(SEA)) causing α-thalassemia in South China. BMC Evolutionary Biology,13(63):1471–2148(2013).
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Dong-Dong Wu*,Ya-Ping Zhang*, Evolution and function of de novo originated genes. Molecular Phylogenetics and Evolution, 57:84–89 (2014).
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Yan-Hua Sua#, Dong-Dong Wu#*, Wei-Ping Zhou, David M. Irwin, Ya-Ping Zhang*, Rapid evolution of the mammalian HILS1 gene and the nuclear condensation process during mammalian spermiogenesis. Journal of Genetics and Genomics, Journal of Genetics and Genomics, 40:55–59 (2013) .
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Dong-Dong Wu#, Gui-Mei Li#, Wei Jin, Yan Li, Ya-Ping Zhang*, Positive selection on the osteoarthritis-risk and decreased-height associated variants at the GDF5 gene in East Asians. PLoS ONE, 7(8): e4255(2012).
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Wei Jin#, Dong-Dong Wu#*, Xin Zhang, David M. Irwin and Ya-Ping Zhang*, Positive selection on the gene RNASEL: correlation between patterns of evolution and function. Molecular Biology and Evolution, 29(10):3161–3168(2012).
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Hui Li#, Jia-Xin Wang#, Dong-Dong Wu, Hua-Wei Wang, Nelson Leung-Sang Tang*,Ya-PingZhang*,The origin and evolution of variable number tandem repeat of CLEC4M gene in the global human population. PLoS ONE, 7(1): e30268(2012).
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Dong-Dong Wu, David M. Irwin, Ya-Ping Zhang*, De novo origin of human protein-coding genes. PLoS Genetics,7(11):e1002379(2011).
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Yin-Qiu Ji#, Dong-Dong Wu#, Gui-Sheng Wu, Guo-Dong Wang, Ya-Ping Zhang*, Multi-locus analysis reveals a different pattern of genetic diversity for mitochondrial and nuclear DNA between wild and domestic pigs in East Asia. PLoS ONE, 6(10): e26416(2011).
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Dong-Dong Wu#, Ya-Ping Zhang*, Eukaryotic origin of a metabolic pathway in virus by horizontal gene transfer. Genomics, 98:367–369(2011) .
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Dong-Dong Wu#, David M. Irwin# and Ya-Ping Zhang*, Correlated Evolution among Six Gene Families in Drosophila Revealed by Parallel Change of Gene Numbers. Genome Biol Evol, 3:396–400(2011).