1. Jun Yu, Jun Wang, ..., Weimou Zheng, Bailin Hao, ..., Huanmijng Yang, "The genomes of Oryza sativa: a history of duplications", PloS Biology 3(2) (2005), e38 (PDF).

2. Wang Xiying, Shi Xiaoli, Hao Bailin, Ge Song, Luo Jingchu, ``Duplication and DNA segmentation loss in rice genome and their implications for diploidization'', New Phytologist, 165 (2005), 937-946 (PDF).

3. Heng Li, Jin-Song Liu, Zhao Xu, ..., Weimou Zheng, Bailin Hao, "Test data sets and evaluation of gene prediction programs on the rice genome", J. Comput. Sci. & Technol., 20(4) (July 2005), 446-453 (PDF).

4. Hao Bailin and Zhang Shuyu, ``Digital Civilization -- Physics and Computers'', Science Press, Beijing, July 2005, xii + 295, ISBN 7-03-015549-1 (A book in Chinese).

5. Hao Bailin, "Pu Fu-que and the calculation of small antennas", Wuli (Physics) 34(10) (2005) 769-770; Collected Works of Pu Fu-que, Institute of Physics, CAS, 2005, 5-7 (in Chinese).

6. Yu Lu, Hao Bailin and Chen Xiaosong, ``Phase Transitions and Critical Phenomena'', Science Press, Beijing, July 2005, x + 229, ISBN 7-03-015547-5 (A book in Chinese).

7. "Critical slowing down in one-dimensional maps and beyond", J. Stat. Phys., 121(3/4) (December 2005), 749-757; published online on 5 December 2005, (PDF).

8. "Doing science honestly", Science & Technology Review, 24 (January 2006), 1 (in Chinese).

9. Lei Gao, Ji Qi, Bailin Hao, "Simple Markov subtraction essentially improves prokaryote phylogeny", AAPPS Bulletin, June 2006, 3-7 (PDF).

10. Bailin Hao, "Complexity, coarse-graining and symbolic description", Santa Fe Institute Working Paper No.06-10-037, appeared in Crossroads, the Webjournal of Asia Pacific Center for Theoretical Physics (APCTP), October 2006 http://crossroads.apctp.org/ (PDF)

11. Hao Bailin, "One hundred years of the theory of Brownian motion", in Frontier and Future of Science, Vol 10, ed. by Xiangshan Science Conferences, China Environmental Science Press, Beijing, October 2006,1 - 17 (in Chinese)

12. Bailin Hao, Huimin Xie, "Factorizable language revisited: from dynamics to biology", Int. J. Mod. Phys., 21(23/24) (2007) 4077 - 4082.

13. Xiaoli Shi, Huimin Xie, Shuyu Zhang, Bailin Hao, "Decomposition and reconstruction of protein sequences: the problem of uniqueness and factorizable language", J. Korean Phys. Soc., 50(1) (2007) 118 - 123 (PDF).

14. Hao Bailin, "Ilya Prigogine and China", written for the new Chinese edition of Prigogine's book From Being to Becoming, Peking University Press, April 2007, 219 - 220 (in Chinese).

15. Gao Lei, Qi Ji, Sun Jiandong, Hao Bailin, "Prkaryote phylogeny meets taxonomy: Comparasion of Composition Vector Trees with Systematic Bacteriology", Science in China (Series C Life Science), 50(5) (2007) 587 - 599 (PDF); Supplementary material: (PDF); Chinese version: 37(4) (2007) 389 - 401 (PDF).

16. Bailin Hao, Huimin Xie, "Factorizable language: from dynamics to biology", Chapter 5 in Reviews of Nonlinear Science and Complexity, vol. 1, ed. by Heinz Georg Schuster, pp. 147 - 186, Wiley-VCH, Weinheim, 2008, ISBN 978-3-527-40729-3.

17. Bailin Hao, Lei Gao, "Prokaryotic branch of the tree of life: a composition vector approach", SFI Working Paper #08-02-007, J. Systematics & Evolution 46(6) (2008) 258 - 262 (PDF).

18. 朗道百年("100 years of Landau"), 《物理》Wuli(Physics), 37(9) (2008) 666 - 671 (PDF) (in Chinese).

19. Zhao Xu, Bailin Hao, "CVTRee update: a newly designed phylogenetic study platform using composition vectors and whole genomes", Nucleic Acids Research 37 2009 Web Server Issue, W174-W178, doi:10.1093/nar/gkp278; Published online April 26, 2009 (PDF).

20. 《负戟吟啸录—一个前沿战士对中国科学的感怀》(A Halberdier's Notes: A Grass-Root Scientist's Thoughts on Science in China)，八方文化创作室 Global Publishing，新加坡 Singapore，2009，viii + 319, ISBN-13 978-981-4261-82-1, ISBN-10 981-4261-82-3

21. Hao Wang, Zhao Xu, Lei Gao, Bailin Hao, "A fungal phylogeny based on 82 complete genomes using the composition vector method", BMC Evolutionary Biology 9 (2009) 195; doi: 10.1186/1471-2148-9-195 (PDF)

22. Qiang Li, Zhao Xu, Bailin Hao, “Composition vector approach to whole-genome-based prokaryotic phylogeny”, J. Biotechnology, article in press, doi: 10.1016/j.jbiotec.2009.12.015

23. 统计物理学，《中国大百科全书》《物理学》(第二版), 中国大百科全书出版社，北京，ISBN 978-7-5000-8147-0，("Statistical physics", entry written for the 2nd Edition of the Grand Encyclopedia of China), 2009, 441 - 444 (in Chinese).

24. 生物信息学，《中国大百科全书》《物理学》(第二版)，中国大百科全书出版社，北京，ISBN 978-7-5000-8147-0，("Bioinformatics", entry written for the 2nd Edition of the Grand Encyclopedia of China), 2009, 403 - 406 (in Chinese).

25. Sun Jiandong, Xu Zhao, Hao Bailin, "Whole-genome based Archaea phylogeny and taxonomy --- a composition vector approach", Chinese Science Bulletin, 2009, accepted for publication.