1.Yiwen Guo, Jingnan Wang, Mingfei Zhu, Rui Zeng, Zaiyan Xu,Guoliang Li, and Bo Zuo, Identification of MyoD-Responsive Transcripts Reveals a Novel Long Non-coding RNA (lncRNA-AK143003) that Negatively Regulates Myoblast Differentiation, Scientific Reports 7, 2017 (Accepted)

2.方亞平，彭城，阮一駿，李國亮，三維基因組學及其精準醫學意義（under publication），2017

3.Xingwang Li, Oscar Junhong Luo, Ping Wang, Meizhen Zheng, Danjuan Wang, Emaly Piecuch, Jacqueline Jufen Zhu, Simon Zhongyuan Tian, Zhonghui Tang,Guoliang Li, Yijun Ruan, Long-read ChIA-PET for base-pair resolution mapping of haplotype-specific chromatin interactions, Nature Protocol, 2017 May;12(5):899-915. PubMed PMID: 28358394

4.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

5.Yaping Fang,Yunlong Wang, Qin Zhu,JiaWang,Guoliang Li, In silico identification of enhancers on the basis of a combination of transcription factor binding motif occurrences, Scientific Reports, 2016Sep 1;6:32476. doi: 10.1038/srep32476

6.Shaoli Zhou, Xiaoyu Liu, Chao Zhou, Qiangwei Zhou, Yu zhao,Guoliang Li, Dao-Xiu Zhou, Cooperation between the H3K27me3 chromatin marker and non-CG methylation in epigenetic regulation, Plant Physiology, 2016Oct;172(2):1131-1141. Epub 2016 Aug 17

7.Wei Zong, Ning Tang, Jun Yang, Lei Peng, Siqi Ma, Yan Xu,Guoliang Li, Lizhong Xiong, Feedback regulation of ABA signaling and biosynthesis by OsbZIP23 that targets diverse drought resistance related genes in rice, Plant Physiology, 171(4):2810-25, 2016, doi: 10.1104/pp.16.00469

8.Chao Wang, Haixiang Yu, Li Luo, Liujian Duan, Liuyang Cai, Xinxing He, Jiangqi Wen, Kirankumar S Mysore,Guoliang Li, Aifang Xiao, Deqiang Duanmu, Yangrong Cao, Zonglie Hong, Zhongming Zhang, NODULES WITH ACTIVATED DEFENSE 1 is required for maintenance of rhizobial endosymbiosis in Medicago truncatula, New Phytologist, 2016 Oct; 212(1):176-91. doi: 10.1111/nph.14017

9.Feng Tan#, Chao Zhou#, Qiangwei Zhou#, Shaoli Zhou, Wenjing Yang, Yu Zhao,Guoliang Li, Dao-Xiu Zhou, Analysis of Chromatin Regulators Reveals Specific Features of Rice DNA Methylation Pathways, Plant Physiology, 2016, 171:2041-2054, doi: 10.1104/pp.16.00393

10.朱菊芬,李國亮, 阮一駿, 人類三維基因組學的研究進展及其精準醫學意義, 科學發展報告，2016

11.Tang, Z., O. J. Luo, X. Li, M. Zheng, J. J. Zhu, P. Szalaj, P. Trzaskoma, A. Magalska, J. Wlodarczyk, B. Ruszczycki, P. Michalski, E. Piecuch, P. Wang, D. Wang, S. Z. Tian, M. Penrad-Mobayed, L. M. Sachs, X. Ruan, C. L. Wei, E. T. Liu, G. M. Wilczynski, D. Plewczynski,Guoliang Liand Y. Ruan (2015). CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription. Cell 163(7): 1611-1627.

12.Kuznetsova, T., S. Y. Wang, N. A. Rao, A. Mandoli, J. H. Martens, N. Rother, A. Aartse, L. Groh, E. M. Janssen-Megens,Guoliang Li, Y. Ruan, C. Logie and H. G. Stunnenberg (2015). Glucocorticoid receptor and nuclear factor kappa-b affect three-dimensional chromatin organization. Genome Biology 16(1): 264.

13.Yuan, D., Z. Tang, M. Wang, W. Gao, L. Tu, X. Jin, L. Chen, Y. He, L. Zhang, L. Zhu, Y. Li, Q. Liang, Z. Lin, X. Yang, N. Liu, S. Jin, Y. Lei, Y. Ding,Guoliang Li, X. Ruan, Y. Ruan and X. Zhang (2015). The genome sequence of Sea-Island cotton (Gossypium barbadense) provides insights into the allopolyploidization and development of superior spinnable fibres. Scientific Reports 5: 17662.

14.Fei Yao, J. P. Kausalya, Y. Y. Sia, A. S. Teo, W. H. Lee, A. G. Ong, Z. Zhang, J. H. Tan,Guoliang Li, D. Bertrand, X. Liu, H. M. Poh, P. Guan, F. Zhu, T. N. Pathiraja, P. N. Ariyaratne, J. Rao, X. Y. Woo, S. Cai, F. H. Mulawadi, W. T. Poh, L. Veeravalli, C. S. Chan, S. S. Lim, S. T. Leong, S. C. Neo, P. S. Choi, E. G. Chew, N. Nagarajan, P. E. Jacques, J. B. So, X. Ruan, K. G. Yeoh, P. Tan, W. K. Sung, W. Hunziker, Y. Ruan and A. M. Hillmer (2015). "Recurrent Fusion Genes in Gastric Cancer: CLDN18-ARHGAP26 Induces Loss of Epithelial Integrity." Cell reports 12(2): 272–285

15.Guoliang Li, Liuyang Cai, Huidan Chang, Ping Hong, Qiangwei Zhou, Ekaterina V Kukakova, Nikolay A Kolchanov and Yijun Ruan. Chromatin Interaction Analysis with Paired-End Tag (ChIA-PET) sequencing technology and application. BMC Genomics，2014, S12, S11

16.彭城#，李國亮#，張紅雨，阮一駿(2014).染色質三維結構重建及其生物學意義，《中國科學：生命科學》，794-802.

17.Maejima, T., Inoue, T., Kanki, Y., Kohro, T.,Guoliang Li, Ohta, Y., Kimura, H., Kobayashi, M., Taguchi, A., Tsutsumi, S., et al. (2014). Direct Evidence for Pitavastatin Induced Chromatin Structure Change in the KLF4 Gene in Endothelial Cells. PLoS One, 9, e96005

18.Liang Niu,Guoliang Li, Shili Lin (2014), Statistical Models for Detecting Differential Chromatin Interactions Mediated by a Protein, PLoS One, 9, e97560

19.李國亮，阮一駿，谷瑞升，杜生明，起航三維基因組學研究，《科學通報》，2014, 59, 1165-1172

20.T. Inoue, T. Kohro, T. Tanaka, Y. Kanki,Guoliang Li, H. M. Poh, I. Mimura, M. Kobayashi, A. Taguchi, T. Maejima, J. I. Suehiro, A. Sugiyama, K. Kaneki, H. Aruga, S. Dong, J. F. Stevens, S. Yamamoto, S. Tsutsumi, T. Fujita, X. Ruan, H. Aburatani, M. Nangaku, Y. Ruan, T. Kodama, and Y. Wada, Cross-enhancement of ANGPTL4 transcription by HIF1 alpha and PPAR beta/delta is the result of the conformational proximity of two response elements, Genome Biology, vol. 15, p. R63, Apr 10 2014.

21.Dijun Chen, Liang-Yu Fu, Zhao Zhang,Guoliang Li, Hang Zhang, Li Jiang, Andrew P. Harrison, Hugh P. Shanahan, Christian Klukas, Hong-Yu Zhang, Yijun Ruan, Ling-ling Chen and Ming Chen, Dissecting the chromatin interactome of microRNA genes, Nucleic Acids Research, 42, pp. 3028-3043, 2014

22.Kyong-Rim Kieffer Kwon, Zhonghui Tang, Ewy Mathe, Jason Qian, Myong-Hee Sung,Guoliang Li, Wolfgang Resch, Songjoon Baek, Nathanael Pruett, Lars Grontvend, Laura Vian, Steevenson Nelson, Hossein Zare, Ofir Hakim, Deepak Reyon, Arito Yamane, Hirotaka Nakahashi, Alexander L. Kovalchuk, Jizhong Zou, J. Keith Joung, Vittorio Sartorelli, Chia-Lin Wei, Xiaoan Ruan, Gordon L. Hager, Yijun Ruan, Rafael Casellas, Interactome maps of mouse gene regulatory domains reveal basic principles of transcriptional regulation, Cell, 155, 1507-1520, 2013

23.Yubo Zhang, Chee-Hong Wong, Ramon Y. Birnbaum,Guoliang Li, Rebecca Favaro, Chew Yee Ngan, Joanne Lim, Eunice Tai, Huay Mei Poh, Eleanor Wong, Fabianus Hendriyan Mulawadi, Ken Sung, Silvia Nicolis, Nadav Ahituv, Yijun Ruan and Chia-Lin Wei, Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations, Nature, vol. 504, pp. 306-310, 2013

24.T. R. Mercer, S. L. Edwards, M. B. Clark, S. J. Neph, H. Wang, A. B. Stergachis, S. John, R. Sandstrom,Guoliang Li, K. S. Sandhu, Y. Ruan, L. K. Nielsen, J. S. Mattick, and J. A. Stamatoyannopoulos, DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements, Nature Genetics, vol. 45, pp. 852-859, 2013

25.Zhizhuo Zhang,Guoliang Li,Kim-Chuan Toh and Wing-Kin Sung, 3D Chromosome Modeling with Semi-definite Programming and Hi-C Data, Journal of Computational Biology, 20, 831-846, 2013

26.Arkasubhra Ghosh, Gaye Saginc, Shi Chi Leow, Eun Myong Shin, Marc Wong, Ting Dong Yan, Zhizhuo Zhang,Guoliang Li, Wing-Kin Sung, Jianbiao Zhou, Wee Joo Chng, Shang Li, Edison Liu, Vinay Tergaonkar, Telomerase directly regulates NFκB dependent transcription, Nature Cell Biology, 14(12) (Dec 2012): 1270-1281

27.Argyris Papantonis, Takahide Kohro, Sabyasachi Baboo, Joshua D Larkin, Binwei Deng, Shuichi Tsutsumi, Stephen Taylor, Mika Kobayashi,Guoliang Li, Huay Mei Poh, Xiaoan Ruan, Hiroyuki Aburatani, Yijun Ruan, Tatsuhiko Kodama, Youichiro Wada, Peter Richard Cook, TNFa signals through specialized factories where responsive coding and miRNA genes are transcribed, EMBO Journal, 31, 23 (Nov 28 2012), 4404-4414

28.Kuljeet S. Sandhu,Guoliang Li, Huay Mei Poh, Yu Ling Kelly Quek, Yee Yen Sia, Su Qin Peh, Fabianus H Mulawadi, Jingyao Zhang, Joanne Lim, Mile Sikic, Francesca Menghi, Anbupalam Thalamuthu, Wing Kin Sung, Xiaoan Ruan, Melissa J Fullwood, Edison Liu, Peter Csermely, Yijun Ruan, Large scale functional organization of long-range chromatin interaction networks, Cell Reports, 2, 5 (Nov 29 2012), 1207-1219

29.Jingyao Zhang, Huay Mei Poh, Su Qin Peh, Yee Yen Sia,Guoliang Li, Fabianus Hendriyan Mulawadi, Yufen Goh, Melissa J. Fullwood, Wing-Kin Sung, Xiaoan Ruan, Yijun Ruan, ChIA-PET Analysis of Transcriptional Chromatin Interactions, Methods (2012), 58, 3 (Nov 2012), 289-299, doi: http://dx.doi.org/10.1016/j.ymeth.2012.08.009

30.Fei Yao, Pramila N. Ariyaratne, Axel M. Hillmer, Wah Heng Lee,Guoliang Li, Audrey S. M. Teo, Xing Yi Woo, Zhenshui Zhang, Jieqi P. Chen, Wan Ting Poh, Kelson F. B. Zawack, Chee Seng Chan, See Ting Leong, Say Chuan Neo, Poh Sum D. Choi, Song Gao, Niranjan Nagarajan, Hervé Thoreau, Atif Shahab, Xiaoan Ruan, Valère Cacheux-Rataboul, Chia-Lin Wei, Guillaume Bourque, Wing-Kin Sung, Edison T. Liu, Yijun Ruan, Long Span DNA Paired-End-Tag (DNA-PET) Sequencing Strategy for the Interrogation of Genomic Structural Mutations and Fusion-Point-Guided Reconstruction of Amplicons, PLOS ONE 7 (9), e46152

31.The ENCODE Project Consortium (includingGuoliang Li). 2012. An integrated encyclopedia of DNA elements in the human genome. Nature 489(7414): 57-74.

32.Jing-Quan Lim, Chandana Tennakoon,Guoliang Li, Eleanor Wong, Yijun Ruan, Chia-Lin Wei and Wing-Kin Sung, BatMeth: Improved Mapper for Bisulfite Sequencing Reads on DNA Methylation, Genome Biology, 13:R82 (3 October 2012), 2012

33.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 (# These authors contributed equally)

34.Melissa J. Fullwood, Joanne Lee, Lifang Lin,Guoliang Li, Mikael Huss, Patrick Ng, Wing-Kin Sung, Shirish Shenolikar, Next-Generation Sequencing of Apoptotic DNA Breakpoints Reveals Association with Actively Transcribed Genes and Gene Translocations, PLoS ONE, 6, e26054, 2011

35.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 (# These authors contributed equally)

36.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. (# These authors contributed equally)

37.Kuljeet Singh Sandhu,Guoliang Li, Wing-Kin Sung, Yijun Ruan, Chromatin Interaction Networks and Higher Order Architectures of Eukaryotic Genomes, Journal of Cellular Biochemistry 2011, 112(9):2218-2221

38.Hillmer AM, Yao F, Inaki K, Lee WH, Ariyaratne PN, Teo AS, Woo XY, Zhang Z, Zhao H, Ukil L, Chen JP, Zhu F, So JB, Salto-Tellez M, Poh WT, Zawack KF, Nagarajan N, Gao S,Guoliang Li,Kumar V, Lim HP, Sia YY, Chan CS, Leong ST, Neo SC, Choi PS, Thoreau H, Tan PB, Shahab A, Ruan X, Bergh J, Hall P, Cacheux-Rataboul V, Wei CL, Yeoh KG, Sung WK, Bourque G, Liu ET, Ruan Y. 2011. Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes. Genome Research 21:665-675.

39.Li Yuqing, Li Yi, Wedren S,Guoliang Li, Charn TH, Vasant DK, Bonnard C, Czene K, Humphreys K, Darabi H, Einarsdttir K et al: Genetic variation of ESR1 and its co-activator PPARGC1B is synergistic in augmenting the risk of estrogen receptor positive breast cancer. Breast Cancer Research 2011, 13(1):R10.

40.Joseph R, Orlov YL, Huss M, Sun W, Kong SL, Ukil L, Pan YF,Guoliang Li, Lim M, Thomsen JS et al: Integrative model of genomic factors for determining binding site selection by estrogen receptor a. Molecular Systems Biology 2010, 6:456.

41.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 (# These authors contributed equally to the work).

42.Louise Laurent, Eleanor Wong,Guoliang Li, T. Huynh, A. Tsirigos, C.T. Ong, H.M. Low, W.-K. Sung, I. Rigoutsos, J. Loring, C.-L. Wei, Dynamic changes in the human methylome during differentiation, Genome Research 20 (3) (2010) 320-331.

43.Guoliang Li, Jian Ma, Louxin Zhang, Greedy Selection of Species for Ancestral State Reconstruction on Phylogenies: Elimination Is Better than Insertion, PLoS ONE 5 (2) (2010) e8985. doi:8910.1371/journal.pone.0008985.

44.Zhang, Louxin, Jian Shen, Jialiang Yang,Guoliang Li, Analyzing the Fitch Method for Reconstructing Ancestral States on Ultrametric Phylogenetic Trees, Bulletin of Mathematical Biology (2010), 72, 1760-1782, DOI: 10.1007/s11538-11010-19505-11538.

45.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.

46.AH. Morris, J. Orme,Jr., JD Truwit, J. Steingrub, C. Grissom, KH Lee,Guoliang Li,BT Thompson, R. Brower, M. Tidswell, G. Bernard, D. Sorenson, K. Sward, H. Zheng, D. Schoenfeld, H. Warner, A replicable method for blood glucose control in critically ill patients, Critical Care Medicine. 36(6):1787-1795, June 2008.

47.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.

48.Guoliang Liand Tze-Yun Leong, Feature Selection for the Prediction of Translation Initiation Sites. Genomics, Proteomics & Bioinformatics, 2005. 3(2): p. 73-83.

會議論文

49. Zhizhuo Zhang,Guoliang Li, Kim-Chuan Toh and Wing-Kin Sung, Inference of Spatial Organizations of Chromosomes Using Semi-definite Embedding Approach and Hi-C Data, Research in Computational Molecular Biology (RECOMB), Lecture Notes in Computer Science Volume 7821, 2013, pp 317-332

50.Guoliang Li, Tze-Yun Leong, Active Learning for Causal Bayesian Network Structure with Non-symmetrical Entropy,PAKDD 2009, LNAI 5476, Springer-Verlag, 2009, pp. 290-301.

51. Bin Han,Guoliang Li, Tze-Yun Leong, Yanchun Zhang, Lihua Li, Wei Liu, Lei Zhu, Weidong Xu, Identifying Causal Effects from Data for the Clinical Ventilation Process Modeling. Proceedings of the 2008 International Conference on BioMedical Engineering and Informatics. Sanya, Hainan, China, 517-521.

52.Guoliang Li, Tze-Yun Leong, Biomedical Knowledge Discovery with Topological Constraints Modeling in Bayesian Networks: A Preliminary Report, in: World Congress on Health (Medical) Informatics (MedInfo) (IOS Press, Brisbane, Australia, 2007) 560-565.

53.Guoliang Li, Jian Ma, Louxin Zhang, Selecting Genomes for Reconstruction of Ancestral Genomes, in: Proceedings of the Fifth Annual RECOMB Satellite Workshop on Comparative Genomics (RECOMB-CG), LNBI 4751 (2007) 110-121.

54. Qiongyu Chen,Guoliang Li, Tze-Yun Leong, Chew-Kiat Heng, Predicting Coronary Artery Disease with Medical Profile and Gene Polymorphisms Data, in: World Congress on Health (Medical) Informatics (MedInfo) (IOS Press, Brisbane, Australia, 2007) 1219-1224.

55. Rohit Joshi,Guoliang Li, Tze-Yun Leong, Context-aware Probabilistic Reasoning for Proactive Healthcare, IJCAI workshop of Artificial Intelligence Techniques for Ambient Intelligence, 2007

56.Guoliang Liand Tze-Yun Leong, A framework to learn Bayesian Networks from changing, multiple-source biomedical data. in Proceedings of the 2005 AAAI Spring Symposium on Challenges to Decision Support in a Changing World. Stanford University, CA, USA, 66-72.

57.Guoliang Li, Tze-Yun Leong, Louxin Zhang, Translation Initiation Sites Prediction with Mixture Gaussian Models, the Proceedings of the 4th Workshop on Algorithms in Bioinformatics (WABI 2004), LNBI 3240, Bergen, Norway, 2004, pp. 338-349.

58. Bin Han, Tze-Yun Leong,Guoliang Li, Learning the Dynamic Bayesian Networks Structure of Ventilation Process in a Linear System Identification Perspective, in: IEEE Workshop on Life Science Data Mining (LSDM) (Brighton, UK, 2004)

專利

1. 譚民;景奉水;梁自澤;李國亮;王躍：開放式工業機器人控制平臺，中國實用新型專利，專利公開號：CN2447131, 公開時間：2001.09.12

2. 譚民;梁自澤;李國亮;景奉水;王躍：開放式工業機器人視覺控制平臺，中國實用新型專利，專利公開號：CN2510250, 公開時間：2002.09.11

3. 譚民;景奉水;梁自澤;李國亮;王躍：開放式工業機器人控制平臺，中國發明專利，專利公開號： CN1344600, 公開時間：2002.04.17

4. 譚民;梁自澤;李國亮;景奉水：開放式工業機器人視覺控制平臺，中國發明專利，專利公開號：CN1417006, 公開時間：2003.05.14

備注

本課題組長期招聘各級研究人員，包括科研助理、博士生、博士后、副研究員、研究員。有從事教學工作意向的人員，也可以和我聯系。

獲獎經歷

1999 中國科學院優秀研究生獎學金

2001~2002 新加坡-麻省理工學院學術聯盟獎學金

2004/2005 新加坡國立大學計算學院，院長獎學金

2005~2007 新加坡國立大學計算學院，研究獎學金