Publications

Xin Wang, Kun Wang, Weixing Zhang, Zhongjie Tang, Hao Zhang, Yuying Cheng, Da Zhou, Chao Zhang, Wen-Zhao Zhong, Qing Ma, Jin Xu, Zheng Hu (2024). Clonal expansion dictates the efficacy of mitochondrial lineage tracing in single cells. BioRxiv, 2024.

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Kun Wang, Zhaolian Lu, Zeqi Yao, Xionglei He, Zheng Hu, Da Zhou (2024). Single-cell phylodynamic inference of tissue development and tumor evolution with scPhyloX. BioRxiv, 2024.

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Yong Zhou, Shanlan Mo, Heyang Cui, Ruifang Sun, Weimin Zhang, Xiaofei Zhuang, Enwei Xu, Hongyi Li, Yikun Cheng, Yongsheng Meng, Meilin Liu, Ting Yan, Huijuan Liu, Ling Zhang, Bin Yang, Yanfeng Xi, Shubin Wang, Xiaolong Cheng, ShuaiCheng Li, Zhihua Liu, Qimin Zhan, Zheng Hu, Yongping Cui (2024). Immune-tumor interaction dictates spatially directed evolution of esophageal squamous cell carcinoma. National Science Review, 2024.

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Xiaodong Liu, Ke Zhang, Neslihan A. Kaya, Zhe Jia, Dafei Wu, Tingting Chen, Zhiyuan Liu, Sinan Zhu, Axel M. Hillmer, Torsten Wuestefeld, Jin Liu, Yun Shen Chan, Zheng Hu, Liang Ma, Li Jiang, Weiwei Zhai (2024). Tumor phylogeography reveals block-shaped spatial heterogeneity and the mode of evolution in Hepatocellular Carcinoma. Nature Communications, 2024.

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Kun Wang, Liangzhen Hou, Xin Wang, Xiangwei Zhai, Zhaolian Lu, Zhike Zi, Weiwei Zhai, Xionglei He, Christina Curtis, Da Zhou, Zheng Hu (2023). PhyloVelo enhances transcriptomic velocity field mapping using monotonically expressed genes. Nature Biotechnology, 2023.

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Zhongjie Tang, Zhaolian Lu, Baizhen Chen, Weixing Zhang, Howard Y Chang, Zheng Hu, Jin Xu (2022). A genetic bottleneck of mitochondrial DNA during human lymphocyte development. Molecular Biology and Evolution, 39(5):msac090.

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Zhaolian Lu, Beina Nie, Weiwei Zhai, Zheng Hu (2021). Delineating the longitudinal tumor evolution using organoid models. Journal of Genetics and Genomics, Online 9 July 2021.

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Zheng Hu, Christina Curtis (2020). Looking backward in time to define the chronology of metastasis. Nature Communications, 11(3213).

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Zheng Hu, Zan Li, Zhicheng Ma, Christina Curtis (2020). Multi-cancer analysis of clonality and the timing of systemic spread in paired primary tumors and metastases. Nature Genetics, 52(701–708).

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Zheng Hu, Jie Ding, Zhicheng Ma, Ruping Sun, Jose A Seoane, J Scott Shaffer, Carlos J Suarez, Anna S Berghoff, Chiara Cremolini, Alfredo Falcone, Fotios Loupakis, Peter Birner, Matthias Preusser, Heinz-Josef Lenz, Christina Curtis (2019). Quantitative evidence for early metastatic seeding in colorectal cancer. Nature Genetics, 51(1113–1122).

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Jennifer L Caswell-Jin, Katherine McNamara, Johannes G Reiter, Ruping Sun, Zheng Hu, Zhicheng Ma, Jie Ding, Carlos J Suarez, Susanne Tilk, Akshara Raghavendra, Victoria Forte, Suet-Feung Chin, Helen Bardwell, Elena Provenzano, Carlos Caldas, Julie Lang, Robert West, Debu Tripathy, Michael F Press, Christina Curtis (2019). Clonal replacement and heterogeneity in breast tumors treated with neoadjuvant HER2-targeted therapy. Nature Communications, 10(657).

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Yuezheng Zhang, Yawei Li, Tao Li, Xu Shen, Tianqi Zhu, Yong Tao, Xueying Li, Di Wang, Qin Ma, Zheng Hu, Jialin Liu, Jue Ruan, Jun Cai, Hurng-Yi Wang, Xuemei Lu (2019). Genetic Load and Potential Mutational Meltdown in Cancer Cell Populations. Molecular Biology and Evolution, 3(541–552).

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Hurng-Yi Wang, Yuxin Chen, Ding Tong, Shaoping Ling, Zheng Hu, Yong Tao, Xuemei Lu, Chung-I Wu (2017). Is the evolution in tumors Darwinian or non-Darwinian?. National Science Review, 5(15-17).

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Ruping Sun, Zheng Hu, Christina Curtis (2017). Big Bang tumor growth and clonal evolution. Cold Spring Harbor Perspectives in Medicine, 8(5):a028381.

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Ruping Sun, Zheng Hu, Andrea Sottoriva, Trevor A Graham, Arbel Harpak, Zhicheng Ma, Jared M Fischer, Darryl Shibata, Christina Curtis (2017). Between-region genetic divergence reflects the mode and tempo of tumor evolution. Nature Genetics, 49(1015–1024).

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Zheng Hu, Ruping Sun, Christina Curtis (2017). A population genetics perspective on the determinants of intra-tumor heterogeneity. BBA Reviews on Cancer, 2(109-126).

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Zheng Hu, Christina Curtis (2016). Inferring tumor phylogenies from multi-region sequencing. Cell Systems, 1(12-14).

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Shaoping Ling, Zheng Hu, Zuyu Yang, Fang Yang, Yawei Li, Pei Lin, Ke Chen, Lili Dong, Lihua Cao, Yong Tao, Lingtong Hao, Qingjian Chen, Qiang Gong, Dafei Wu, Wenjie Li, Wenming Zhao, Xiuyun Tian, Chunyi Hao, Eric A Hungate, Daniel VT Catenacci, Richard R Hudson, Wen-Hsiung Li, Xuemei Lu, Chung-I Wu (2015). Extremely high genetic diversity in a single tumor points to prevalence of non-Darwinian cell evolution. PNAS, 112(1113–1122).

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Zheng Hu, Yun-Xin Fu, Anthony J Greenberg, Chung-I Wu, Weiwei Zhai (2013). Age-dependent transition from cell-level to population-level control in murine intestinal homeostasis revealed by coalescence analysis. PLoS Genetics, 2(e1003326).

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