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21. Qing Zhang*, Pengpeng Guan*, Lun Zhao*, Meng Ma, Liang Xie, Yue Li, Ruiqin Zheng, Weizhi Ouyang, Shunyao Wang, Hongmeijuan Li, Ying Zhang, Yong Peng, Zhilin Cao, Wei Zhang, Qin Xiao, Yuanling Xiao, Tingdong Fu, Guoliang Li#, Xingwang Li#, Jinxiong Shen# (2021) Asymmetric epigenome maps of subgenomes reveal imbalanced transcription and distinct evolutionary trends in Brassica napus. Molecular Plant. 14:1–16
20. Weizhi Ouyang*, Qin Xiao*, Guoliang Li#, Xingwang Li# (2021) Technologies for Capturing 3D Genome Architecture in Plants. Trends in Plant Science. 26: 196–197
19. Weizhi Ouyang*, Dan Xiong*, Guoliang Li#, Xingwang Li# (2020) Unraveling the 3D Genome Architecture in Plants: Present and Future. Molecular Plant. 13: 1676–1693
18. Weizhi Ouyang*, Zhilin Cao*, Dan Xiong, Guoliang Li#, Xingwang Li# (2020) Decoding the Plant Genome: from Epigenome to 3D Organization. Journal of Genetics and Genomics. 47: 425–435
17. Lun Zhao*, Liang Xie*, Qing Zhang*, Weizhi Ouyang, Li Deng, Pengpeng Guan, Meng Ma, Yue Li, Ying Zhang, Qin Xiao, Jingwen Zhang, Hongmeijuan Li, Shunyao Wang, Jiangwei Man, Zhilin Cao, Qinghua Zhang, Qifa Zhang, Guoliang Li#, Xingwang Li# (2020) Integrative analysis of reference epigenomes in 20 rice varieties. Nature Communications. 11: 2658.
16. Yonghao Sun*, Liang Dong*, Ying Zhang, Da Lin, Weize Xu, Changxiong Ke, Linqian Han, Lulu Deng, Guoliang Li, David Jackson, Xingwang Li#, Fang Yang# (2020) 3D genome architecture coordinates trans and cis regulation of differentially expressed ear and tassel genes in maize. Genome Biology. 21: 143.
15. Lun Zhao*, Shuangqi Wang*, Zhilin Cao*, Weizhi Ouyang, Qing Zhang, Liang Xie, Ruiqin Zheng, Minrong Guo, Meng Ma, Zhe Hu, Wing-Kin Sung, Qifa Zhang, Guoliang Li#, Xingwang Li# (2019) Chromatin loops associated with active genes and heterochromatin shape rice genome architecture for transcriptional regulation. Nature Communications. 10: 3640.
14. Yong Peng*, Dan Xiong*, Lun Zhao, Weizhi Ouyang, Shuangqi Wang, Jun Sun, Qing Zhang, Pengpeng Guan, Liang Xie, Wenqiang Li, Guoliang Li#, Jianbing Yan#, Xingwang Li# (2019) Chromatin Interaction Maps Reveal Genetic Regulation for Quantitative Traits in Maize. Nature Communications. 10: 2632.
13. Xingwang Li*, Oscar Luo*, Ping Wang, Meizhen Zheng, Danjuan Wang, Emaly Piecuch, Jacqueline Jufen Zhu, Simon Tian, Zhonghui Tang, Guoliang Li, Yijun Ruan. (2017) Long-read ChIA-PET for base-pair resolution mapping of haplotype-specific chromatin interactions. Nature Protocol. 12: 899–915.(*Co-first author)
12. Zhonghui Tang*, Oscar Luo*, Xingwang Li*, Meizhen Zheng, Jacqueline Jufen Zhu, Przemyslaw Szalaj, Pawel Trzaskoma, Adriana Magalska, Jakub Wlodarczyk, Blazej Ruszczycki, Paul Michalski, Emaly Piecuch, Ping Wang, Danjuan Wang, Simon Zhongyuan Tian, Xiaoan Ruan, May Penrad-Mobayed, Laurent M. Sachs, Chia-Lin Wei, Edison T. Liu, Grzegorz M. Wilczynski, Dariusz Plewczynski, Guoliang Li, Yijun Ruan. (2015) CTCF-mediated 3D genome architecture reveals a chromatin topology for transcription regulation. Cell. 163: 1611–1627. (*Co-first author)
11. Xingwang Li and Changyin Wu. (2014) Rice Meiotic Chromosome Spread Preparation of Pollen Mother Cells. Bio-protocol 4(14): e1189.
10. Xingwang Li, Yuxiao Chang, Xiaodong Xin, Chunmei Zhu, Xianghua Li, James D Higgins, Changyin Wu. (2013) Replication Protein A2c Coupled with Replication Protein A1c Regulates Crossover Formation during Meiosis in Rice. Plant Cell. 25: 3885–3899.
9. Xingwang Li, Xingqiang Gao, Yi Wei, Li Deng, Yidan Ouyang, Guoxing Chen, Xianghua Li, Qifa Zhang, Changyin Wu. (2011) Rice Apoptosis inhibitor 5 coupling with two DEAD-box ATP-dependent RNA helicases regulates the PCD process of tapetum degeneration. Plant Cell. 23:1416–1434.
8. Laura Vian, Aleksandra Pekowska, Suhas Rao, Kyong-Rim Kieffer-Kwon, Seolkyoung Jung, Laura Baranello, Su-Chen Huang, Laila El Khattabi, Marei Dose, Nathanael Pruett, Adrian Sanborn, Andres Canela, Yaako Maman, Anna Oksanen, Wolfgang Resch, Xingwang Li, Byoungkoo Lee, Alexander Kovalchuk, Zhonghui Tang, Steevenson Nelson, Pierro Di, Cheng Michele, Machol Ryan, Ido St Hilaire, Glenn Brian, Neva Durand, Muhammad Shamim, Elena Stamenova, Jose Onuchic, Yijun Ruan, Andre Nussenzweig, David Levens, Erez Lieberman Aiden, Rafael Casellas. (2018) The Energetics and Physiological Impact of Cohesin Extrusion. Cell.173: 1165–1178.
7. Peng Li, Suman Mitra, Rosanne Spolski, Jangsuk Oh, Wei Liao, Zhonghui Tang, Fei Mo, Xingwang Li, Erin West, Daniel Gromer, Jian-Xin Lin, Chengyu Liu, Yijun Ruan, Warren Leonard. (2017) STAT5-mediated chromatin interactions in superenhancers activate IL-2 highly inducible genes: Functional dissection of the Il2ra gene locus. Proc Natl Acad Sci U S A. 114:12111–12119.
6. Isis Ricano-Ponce, Daria Zhernakova, Patrick Deelen, Oscar Luo, Xingwang Li, Aaron Isaacs, Juha Karjalainen, Jennifer Di Tommaso, Zuzanna Agnieszka Borek, Maria Zorro, Javier Gutierrez-Achury, Andre Uitterlinden, Albert Hofman, Joyce van Meurs, Mihai Netea, Iris Jonkers, Sebo Withoff, Cornelia van Duijn, Yang Li, Yijun Ruan, Lude Franke, Cisca Wijmenga, Vinod Kumar. (2016) Refined mapping of autoimmune disease associated genetic variants with gene expression suggests an important role for non-coding RNAs. J Autoimmun. 68:62–74.
5. Przemyslaw Szalaj, Zhonghui Tang, Paul Michalski, Michal Pietal, Oscar Luo, Michal Sadowski, Xingwang Li, Kamen Radew, Yijun Ruan, Dariusz Plewczynski. (2016) An integrated 3-Dimensional Genome Modeling Engine for data-driven simulation of spatial genome organization. Genome Res. 26: 1697–1709.
4. Xinqiang Gao, Zhihui Chen, Jian Zhang, Xingwang Li, Guoxing Chen, Xianghua Li, Changyin Wu. (2012) OsLIS-L1 encoding a lissencephaly type-1-like protein with WD40 repeats is required for plant height and male gametophyte formation in rice. Planta. 353: 713–727.
3. Yuxiao Chang, Liang Gong, Wenya Yuan, Xingwang Li, Guoxing Chen, Xianghua Li, Qifa Zhang, Changyin Wu. (2009) Replication protein A (RPA1a) is required for meiotic and somatic DNA repair but is dispensable for DNA replication and homologous recombination in rice. Plant Physiol. 15: 2162–2173.
2. Wenya Yuan, Xingwang Li, Yuxiao Chang, Ruoyu Wen, Guoxing Chen, Qifa Zhang, Changyin Wu. (2009) Mutation of the rice gene PAIR3 results in lack of bivalent formation in meiosis. Plant J. 59: 303–315.
1. Jian Zhang, Dong Guo, Yuxiao Chang, Changjun You, Xingwang Li, Xiaoxia Dai, Qijun Weng, Guoxing Chen, Qifa Zhang, Changyin Wu. (2007) Non-random distribution of T-DNA insertions at various levels of the genome hierarchy as revealed by analyzing 13804 T-DNA flanking sequences from an enhancer-trap mutant library. Plant J. 49: 947–959.
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