Search
About us
Research Centers
Key Laboratories
Research
Faculty
CAS Members
Center for Genome Biology
Molecular Agrobiology
Developmental Biology
Molecular Systems Biology
Agro-Resources Research
International Cooperation
News
Resources
Education & Training
Join Us
Societies & Publications
Papers
Links
  Location: Home >> Faculty >> Center for Genome Biology
  Center for Genome Biology


Liang Chengzhi


Education
 
Master of Mathematics in Computer Science, University of Waterloo, Canada, 2001
Doctor of Science in Genetics, Institute of Genetics, Chinese Academy of Sciences, China, 1995
Bachelor of Science in Genetics, Wuhan University, China, 1989
 
Professional Experience
 
2012 –, Principle Investigator and Director of Genomics and Bioinformatics Facility, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
2009 – 2012, Scientist II, Crop Information Systems Specialist, International Rice Research Institute
2004 – 2009, Scientific Informatics Manager I, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
2001 – 2003, Bioinformatics Scientist, Bioinformatics Solutions Inc., Waterloo, ON
 


major research areas
 
1) Genome sequencing and analysis: genome de novo sequencing or re-sequecing, RNAseq, population sequencing, genome assembly, population genetic analysis, gene or QTL mapping;
2) Bioinformatics development: algorithm and software for genome annotation and gene regulatory network construction, and databases for genotypic and phenotypic data management and integration.
 

Publications
(Genome annotation, database and software development)
 
1. Huilong Du, Ying Yu, Yanfei Ma, Qiang Gao, Yinghao Cao, Zhuo Chen, Bin Ma, Ming Qi, Yan Li, Xianfeng Zhao, Jing Wang, Kunfan Liu, Peng Qin, Xin Yang, Lihuang Zhu, Shigui Li* and Chengzhi Liang*, (2017) Sequencing and de novo assembly of a near complete indica rice genome. Nature Communications 8:15324 | DOI: 10.1038/ncomms15324.
 
2. Yunyu Wu, Yu Chen, Cunhong Pan, Ning Xiao, Ling Yu, Yuhong Li, Xiaoxiang Zhang, Xuebiao Pan, Xijun Chen, Chengzhi Liang, Zhengyuan Dai, and Aihong Li, (2017) Development and evaluation of near?isogenic lines with different blast resistance alleles at Piz locus in japonica rice from the lower region of Yangtze River, China. Plant Disease doi:http://dx.doi.org/10.1094/PDIS-12-16-1855-RE.
 
3. Chengzhen Liang, Aifu Li, Hua Yu, Wenzhen Li, Chengzhi Liang, Sandui Guo, Rui Zhang, and Chengcai Chu, (2017) Melatonin regulates root architecture by modulating auxin response in rice. Frontiers in Plant Science 8: 134.
 
4. Xiao Ning, Wu Yunyu, Pan Cunhong, Yu Ling, Chen Yu, Liu Guangqing, Li Yuhong, Zhang Xiaoxiang, Wang Zhiping, Dai Zhengyuan, Liang Chengzhi, Li Aihong, Improving of Rice Blast Resistances in Japonica by Pyramiding Major R Genes. Frontiers in Plant Science (2017) 7:1918.
 
5. Dayong Li, Zhiyuan Huang, Shuhui Song, …, Chengzhi Liang, Aihong Li, Guozhen Liu, Shigui Li, Songnian Hu, Xiaofeng Cao, Jun Yu, Longping Yuan, Caiyan Chen, and Lihuang Zhu, Integrated analysis of phenome, genome, and transcriptome of hybrid rice uncovered multiple heterosis-related loci for yield increase. PNAS, 2016, vol. 113 no. 41, E6026-E6035.
 
6. Dejun Li, Rizhong Zeng, Yan Li, Manman Zhao, Jinquan Chao, Yu Li, Kai Wang, Lihuang Zhu*, Wei-Min Tian* & Chengzhi Liang*, Gene expression analysis and SNP/InDel discovery to investigate yield heterosis of two rubber tree F1 hybrids. Scientific Reports 6, Article number: 24984 (2016), doi:10.1038/srep24984
 
7. Shaofeng Li,# Chengming Fan,# Yan Li,# Jianhui Zhang, Jingshuang Sun, Yuhong Chen, Changyan Tian, Xiaohua Su, Mengzhu Lu, Chengzhi Liang, and Zanmin Hu*, Effects of drought and salt-stresses on gene expression in Caragana korshinskii seedlings revealed by RNA-seq. BMC Genomics. 2016; 17: 200.
 
8. Yunyu Wu, Ling Yu, Cunhong Pan, Zhengyuan Dai, Yuhong Li, Ning Xiao, Xiaoxiang Zhang, Hongjuan Ji, Niansheng Huang, Buhong Zhao, Changhai Zhou, Guangqing Liu, Xiaojing Liu, Xuebiao Pan, Chengzhi Liang, Aihong Li, Development of near-isogenic lines with different alleles of Piz locus and analysis of their breeding effect under Yangdao 6 background. Mol Breeding (2016) 36: 12.
 
9. Chen J, Huang Q, Gao D, Wang J, Lang Y, Liu T, Li B, Bai Z, Luis Goicoechea J, Liang C, et al. (2013). Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution. Nature Comm. 4:1595, doi:10.1038/ncomms2596.
 
10. Xie W, Liang C, Birchler JA (2011). Inhibition of RNA interference and modulation of transposable element expression by cell death in Drosophila. Genetics 188, 823-34.
 
11. Patrick S. Schnable, Doreen Ware, Robert Fulton, Joshua Stein, Fusheng Wei, Shiran Pasternak, Chengzhi Liang, Jianwei Zhang, et al, The B73 maize genome: complexity, diversity and dynamics, 2009, Science, Vol. 326. no. 5956, pp. 1112 – 1115, DOI: 10.1126/science.1178534
 
12. Fusheng Wei, Joshua C. Stein, Chengzhi Liang, Jianwei Zhang, Robert S. Fulton, Regina S. Baucom, Emanuele De Paoli, Shiguo Zhou, Lixing Yang, Yujun Han, et al., Detailed Analysis of a Contiguous 22-Mb Region of the Maize Genome, PLoS Genet. 2009 November; 5(11): e1000728
 
13. Chengzhi Liang*, Long Mao, Doreen Ware, Lincoln Stein, Evidence-based gene predictions in plant genomes, Genome Research, 2009, 19(10):1912-23
 
14. Chengzhi Liang, Pankaj Jaiswal, Claire Hebbard, Shuly Avraham, Edward S. Buckler, Terry Casstevens et al., Gramene: a growing plant comparative genomics resource, Nucleic Acid Res, 2008 Vol. 36, Database issue D947-D953
 
15. Bin Ma, Kaizhong Zhang, and Chengzhi Liang. An Effective Algorithm for the Peptide De Novo Sequencing from MS/MS Spectrum. Journal of Computer and System Sciences 70: 418-430. 2005
 
16. Hladish T, Gopalan V, Liang C, Qiu W, Yang P and Stoltzfus A (2007). Bio::NEXUS: a Perl API for the NEXUS format for comparative biological data. BMC Bioinformatics 8, 191.
 
17. Jaiswal P, Ni J, Yap I, Ware D, Spooner W, Youens-Clark K, Ren L, Liang C, et al. (2006). Gramene: a bird’s eye view of cereal genomes. Nucleic Acids Res. 34, Database issue D717-D723.
 
18. Ma B, Zhang K, Hendrie C, Liang C, Li M, Doherty-Kirby A, Lajoie G (2003). PEAKS: Powerful Software for Peptide De Novo Sequencing by MS/MS. Rapid Comm. Mass Spec. 17, 2337-2342.
 
19. Williams CE, Collier CC, Nemacheck, JA, Liang C and Cambron SE (2002). A lection-like wheat gene responds systemically to attempted feeding by virulent first-instar Hessian fly larvae. J. Chem. Ecol. 28, 1411-1428.
 
20. Li XB, Liang CZ, Wu HG, Zhai WX, Huang N, Zhu LH (1996). Isolation and identification of a non-specific tandemly repeated DNA sequence in Oryza species. Theor. Appl. Genet. 92, 702-708.
 
21. Liang CZ, Gu MH, Pan XB, Liang GH, Zhu LH (1994). RFLP tagging a semi-dwarfing gene in rice. Theor. Appl. Genet. 88, 898-900.