Guoliang Li-College of Informatics

Name

Guoliang Li

Sex

Male

Title

Professor

Institute

College of Informatics, Huazhong Agricultural University

address

1 Shizishan Jie, Hongshan Qu, Wuhan 430070, China

email

guoliang.li@mail.hzau.edu.cn

Phone

0086 27 87285078

Fax

Research Interest

Bioinformatics, Computational Biology, 3D Genomics, long-range chromatin interaction, epigenomics, NGS data analysis

Academic activities

Member of Bioinformatics Division, China Computer Federation

Education and research experience

Education

1990.9－1994.7, Undergraduate Student, Department of Automatic Control, XiAn Jiaotong University, China

1998.9－2001.6, Master Student, Institute of Automation, Chinese Academy of Sciences, China

2001.7－2002.6, Master Student, Computer Science, Singapore-MIT Alliance, Singapore

2003.1－2009.7, PhD Candidate, School of Computing, National University of Singapore, Singapore

Work experience

1994.7－1998.8, Assistant Engineer, XiAn 618 Institute, China

2002.8－2005.3, Research Assistant, School of Computing, National University of Singapore, Singapore

2008.1－2008.12, Teaching Assistant, School of Computing, National University of Singapore, Singapore

2009.1－2012.12, Post-Doc, Research Associate, Genome Institute of Singapore, Singapore

2013.1－2013.12, Research Scientist, Jackson Laboratory, USA

2014.1－Present, Professor, College of Informatics, Huazhong Agricultural University, China

Grants

1. Discovering key long-range regulatory genes in lung cancer with three-dimensional genomics, Grant number: 31970590, National Natural Science Foundation of China, 2020.01-2023.12.

2. Study of key technologies for food security big data, Grant Number: 2018YFC1604005, National Key R&D Program of China, 2018.12-2021.12.

3. A new method for chromosome conformation capture with double enzyme cutting and its application in dissecting 3D genome of macrophage during differentiation and activation, Grant Number: 31771402, National Natural Science Foundation of China, 2018.01-2021.12.

4. Long non-coding RNA (lncRNA) study based on long-range chromatin interactions, Grant number: 91440114, National Natural Science Foundation of China, 2015.01-2017.12.

5. Analysis and study in 3D Genomics, the Fundamental Research Funds for the Central Universities, 2014.01-2015.12.

Representative publications（*for corresponding authors, # for first authors）

1. 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*, Chromatin loops associated with active genes and heterochromatin shape rice genome architecture for transcriptional regulation, Nature Communications, 10, 3640, DOI: 10.1038/s41467-019-11535-9, (2019).

2. Hui Zhang, Ruiqin Zheng, Yunlong Wang, Yu Zhang, Ping Hong, Yaping Fang, Guoliang Li*, Yuda Fang*, The effects of Arabidopsis genome duplication on the chromatin organization and transcriptional regulation, Nucleic Acids Research, 47(15), 7857–7869, DOI: 10.1093/nar/gkz511 (2019).

3. 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*, Chromatin Interaction Maps Reveal Genetic Regulation for Quantitative Traits in Maize, Nature Communications, 10, 2632, DOI: 10.1038/s41467-019-10602-5, (2019).

4. Da Lin^#, Ping Hong^#, Liang Li, Siheng Zhang, Weize Xu, Muhammad Jamal, Keji Yan, Yingying Lei, Yijun Ruan, Zhenfang Fu, Guoliang Li^* & Gang Cao^*, Digestion-Ligation-Only Hi-C, a Simple, Cost-effective, and Highly Efficient Method for Chromosome Conformation Capture, Nature Genetics, volume 50, pages 754–763, doi:10.1038/s41588-018-0111-2 (2018).

5. Liuyang Cai, Huidan Chang, Yaping Fang, Guoliang Li*, A Comprehensive Characterization of the Function of LincRNAs in Transcriptional Regulation Through Long-Range Chromatin Interactions, Scientific Reports 6, (2016), doi:10.1038/srep36572.

6. Guoliang Li^#, Xiaoan Ruan^#, Raymond K. Auerbach^#, Kuljeet Singh Sandhu^#, Meizhen Zheng, Ping Wang, Huay Mei Poh, Yufen Goh, Joanne Lim, Jingyao Zhang, Hui Shan Sim, Su Qin Peh, Fabianus Hendriyan Mulawadi, Chin Thing Ong, Yuriy L. Orlov, Shuzhen Hong, Zhizhuo Zhang, Steve Landt, Debasish Raha, Ghia Euskirchen, Chia-Lin Wei, Weihong Ge, Huaien Wang, Carrie Davis, Katherine I. Fisher-Aylor, Ali Mortazavi, Mark Gerstein, Thomas Gingeras, Barbara Wold, Yi Sun, Melissa J. Fullwood, Edwin Cheung, Edison Liu, Wing-Kin Sung, Michael Snyder, and Yijun Ruan, Extensive Promoter-centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation, Cell, 148, 84-98.

7. Say Li Kong^#, Guoliang Li^#, Siang Lin Loh, Wing-Kin Sung, Edison T. Liu, Cellular reprogramming by the conjoint action of ERα, FOXA1 and GATA3 for ligand inducible growth. Molecular Systems Biology 2011, 7:526.

8. Lusy Handoko^#, Han Xu^#, Guoliang Li^#, Chew Yee Ngan, Elaine Chew, Marie Schnapp, Charlie Wah Heng Lee, Chaopeng Ye, Joanne Lim Hui Ping, Fabianus Mulawadi, Eleanor Wong, Jianpeng Sheng, Yubo Zhang, Thompson Poh, Chee Seng Chan, Galih Kunarso, Atif Shahab, Guillaume Bourque, Valere Cacheux-Ratabou, Wing-Kin Sung, Yijun Ruan, Chia-Lin Wei, CTCF-Mediated Functional Chromatin Interactome in Pluripotent Cells, Nature Genetics 43, 630-638.

9. Guoliang Li^#, M.J. Fullwood^#, H. Xu^#, F.H. Mulawadi, S. Velkov, V. Vega, P.N. Ariyaratne, Y.B. Mohamed, H.-S. Ooi, C. Tennakoon, C.-L. Wei, Y. Ruan, W.-K. Sung, ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing, Genome Biology 11 (2) (2010) R22, DOI: 10.1186/gb-2010-1111-1182-r1122.

10. Guoliang Li, Steel Mike, Louxin Zhang, More Taxa Are Not Necessarily Better For the Reconstruction of Ancestral Character States, Systematic Biology 57 (4) (2008) 647-653.

11. Guoliang Li, Tze-Yun Leong, and Louxin Zhang, Translation Initiation Sites Prediction with Mixture Gaussian Models in Human cDNA Sequences. IEEE Transactions on Knowledge and Data Engineering, 2005. 17(8): p. 1152-1160.

Basic Information
Name	Guoliang Li		Sex	Male		Title	Professor
Institute		College of Informatics, Huazhong Agricultural University
address		1 Shizishan Jie, Hongshan Qu, Wuhan 430070, China
email		guoliang.li@mail.hzau.edu.cn
Phone		0086 27 87285078			Fax
Research Interest
Bioinformatics, Computational Biology, 3D Genomics, long-range chromatin interaction, epigenomics, NGS data analysis
Academic activities
Member of Bioinformatics Division, China Computer Federation
Education and research experience
Education 1990.9－1994.7, Undergraduate Student, Department of Automatic Control, XiAn Jiaotong University, China 1998.9－2001.6, Master Student, Institute of Automation, Chinese Academy of Sciences, China 2001.7－2002.6, Master Student, Computer Science, Singapore-MIT Alliance, Singapore 2003.1－2009.7, PhD Candidate, School of Computing, National University of Singapore, Singapore Work experience 1994.7－1998.8, Assistant Engineer, XiAn 618 Institute, China 2002.8－2005.3, Research Assistant, School of Computing, National University of Singapore, Singapore 2008.1－2008.12, Teaching Assistant, School of Computing, National University of Singapore, Singapore 2009.1－2012.12, Post-Doc, Research Associate, Genome Institute of Singapore, Singapore 2013.1－2013.12, Research Scientist, Jackson Laboratory, USA 2014.1－Present, Professor, College of Informatics, Huazhong Agricultural University, China
Grants
1. Discovering key long-range regulatory genes in lung cancer with three-dimensional genomics, Grant number: 31970590, National Natural Science Foundation of China, 2020.01-2023.12. 2. Study of key technologies for food security big data, Grant Number: 2018YFC1604005, National Key R&D Program of China, 2018.12-2021.12. 3. A new method for chromosome conformation capture with double enzyme cutting and its application in dissecting 3D genome of macrophage during differentiation and activation, Grant Number: 31771402, National Natural Science Foundation of China, 2018.01-2021.12. 4. Long non-coding RNA (lncRNA) study based on long-range chromatin interactions, Grant number: 91440114, National Natural Science Foundation of China, 2015.01-2017.12. 5. Analysis and study in 3D Genomics, the Fundamental Research Funds for the Central Universities, 2014.01-2015.12.
Representative publications（*for corresponding authors, # for first authors）
1. 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, Chromatin loops associated with active genes and heterochromatin shape rice genome architecture for transcriptional regulation, Nature Communications, 10, 3640, DOI: 10.1038/s41467-019-11535-9, (2019). 2. Hui Zhang, Ruiqin Zheng, Yunlong Wang, Yu Zhang, Ping Hong, Yaping Fang, Guoliang Li*, Yuda Fang, The effects of Arabidopsis genome duplication on the chromatin organization and transcriptional regulation, *Nucleic Acids Research, 47(15), 7857–7869, DOI: 10.1093/nar/gkz511 (2019). 3. 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, Chromatin Interaction Maps Reveal Genetic Regulation for Quantitative Traits in Maize, *Nature Communications, 10, 2632, DOI: 10.1038/s41467-019-10602-5, (2019). 4. Da Lin^#, Ping Hong^#, Liang Li, Siheng Zhang, Weize Xu, Muhammad Jamal, Keji Yan, Yingying Lei, Yijun Ruan, Zhenfang Fu, Guoliang Li^ & Gang Cao^, Digestion-Ligation-Only Hi-C, a Simple, Cost-effective, and Highly Efficient Method for Chromosome Conformation Capture, Nature Genetics, volume 50, pages 754–763, doi:10.1038/s41588-018-0111-2 (2018). 5. Liuyang Cai, Huidan Chang, Yaping Fang, Guoliang Li, A Comprehensive Characterization of the Function of LincRNAs in Transcriptional Regulation Through Long-Range Chromatin Interactions, Scientific Reports 6, (2016), doi:10.1038/srep36572. 6. Guoliang Li^#, Xiaoan Ruan^#, Raymond K. Auerbach^#, Kuljeet Singh Sandhu^#, Meizhen Zheng, Ping Wang, Huay Mei Poh, Yufen Goh, Joanne Lim, Jingyao Zhang, Hui Shan Sim, Su Qin Peh, Fabianus Hendriyan Mulawadi, Chin Thing Ong, Yuriy L. Orlov, Shuzhen Hong, Zhizhuo Zhang, Steve Landt, Debasish Raha, Ghia Euskirchen, Chia-Lin Wei, Weihong Ge, Huaien Wang, Carrie Davis, Katherine I. Fisher-Aylor, Ali Mortazavi, Mark Gerstein, Thomas Gingeras, Barbara Wold, Yi Sun, Melissa J. Fullwood, Edwin Cheung, Edison Liu, Wing-Kin Sung, Michael Snyder, and Yijun Ruan, Extensive Promoter-centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation, Cell, 148, 84-98. 7. Say Li Kong^#, Guoliang Li^#, Siang Lin Loh, Wing-Kin Sung, Edison T. Liu, Cellular reprogramming by the conjoint action of ERα, FOXA1 and GATA3 for ligand inducible growth. Molecular Systems Biology 2011, 7:526. 8. Lusy Handoko^#, Han Xu^#, Guoliang Li^#, Chew Yee Ngan, Elaine Chew, Marie Schnapp, Charlie Wah Heng Lee, Chaopeng Ye, Joanne Lim Hui Ping, Fabianus Mulawadi, Eleanor Wong, Jianpeng Sheng, Yubo Zhang, Thompson Poh, Chee Seng Chan, Galih Kunarso, Atif Shahab, Guillaume Bourque, Valere Cacheux-Ratabou, Wing-Kin Sung, Yijun Ruan, Chia-Lin Wei, CTCF-Mediated Functional Chromatin Interactome in Pluripotent Cells, Nature Genetics 43, 630-638. 9. Guoliang Li^#, M.J. Fullwood^#, H. Xu^#, F.H. Mulawadi, S. Velkov, V. Vega, P.N. Ariyaratne, Y.B. Mohamed, H.-S. Ooi, C. Tennakoon, C.-L. Wei, Y. Ruan, W.-K. Sung, ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing, Genome Biology 11 (2) (2010) R22, DOI: 10.1186/gb-2010-1111-1182-r1122. 10. Guoliang Li, Steel Mike, Louxin Zhang, More Taxa Are Not Necessarily Better For the Reconstruction of Ancestral Character States, Systematic Biology 57 (4) (2008) 647-653. 11. Guoliang Li, Tze-Yun Leong, and Louxin Zhang, Translation Initiation Sites Prediction with Mixture Gaussian Models in Human cDNA Sequences. IEEE Transactions on Knowledge and Data Engineering**, 2005. 17(8): p. 1152-1160.