Chen Z and Schneider TD. Takeover ratio explains excess information at T7-like promoters. 2008, in preparation.

Chen Z, Lewis KA, Shultzaberger RK, Lyakhov IG, Zheng M, Doan B, Storz G and Schneider TD. Discovery of Fur binding site clusters in Escherichia coli by information theory models. Nucleic Acids Res, 2007, 35(20):6762-77. [PubMed]

Shultzaberger RK, Chen Z, Lewis KA and Schneider TD. Anatomy of Escherichia coli sigma 70 promoters. Nucleic Acids Res, 2007,35(3):771-788. [PubMed]

Chen Z and Schneider TD. Comparative analysis of tandem T7-like promoter containing regions in enterobacterial genomes reveals a novel group of genetic islands. Nucleic Acids Res, 2006,34(4):1133-1147. [PubMed] [PDF] [Supplementary Material]

Chen Z and Schneider TD. Information theory based T7-like promoter models: classification of bacteriophages and differential evolution of promoters and their polymerases. Nucleic Acids Res, 2005 Oct; 33(19):6172-6187. [PubMed] [PDF] [Supplementary Material]

Chen Z and Schneider TD. Excess information at T7-like promoters and classification of T7-like phages. RECOMB: Currents in Computational Molecular Biology. 2004, 492-3. [PDF]

Feng Q, Zhang Y, Hao P, Wang S, Fu G, Huang Y, Li Y, Zhu J, Liu Y, Hu X, Jia P, Zhang Y, Zhao Q, Ying K, Yu S, Tang Y, Weng Q, Zhang L, Lu Y, Mu J, Lu Y, Zhang LS, Yu Z, Fan D, Liu X, Lu T, Li C, Wu Y, Sun T, Lei H, Li T, Hu H, Guan J, Wu M, Zhang R, Zhou B, Chen Z, Chen L, Jin Z, Wang R, Yin H, Cai Z, Ren S, Lv G, Gu W, Zhu G, Tu Y, Jia J, Zhang Y, Chen J, Kang H, Chen X, Shao C, Sun Y, Hu Q, Zhang X, Zhang W, Wang L, Ding C, Sheng H, Gu J, Chen S, Ni L, Zhu F, Chen W, Lan L, Lai Y, Cheng Z, Gu M, Jiang J, Li J, Hong G, Xue Y, Han B. Sequence and analysis of rice chromosome 4. Nature, 2002 Nov 21; 420(6913):316-20. [PubMed]

Zhao Q, Zhang Y, Cheng Z, Chen M, Wang S, Feng Q, Huang Y, Li Y, Tang Y, Zhou B, Chen Z, Yu S, Zhu J, Hu X, Mu J, Ying K, Hao P, Zhang L, Lu Y, Zhang LS, Liu Y, Yu Z, Fan D, Weng Q, Chen L, Lu T, Liu X, Jia P, Sun T, Wu Y, Zhang Y, Lu Y, Li C, Wang R, Lei H, Li T, Hu H, Wu M, Zhang R, Guan J, Zhu J, Fu G, Gu M, Hong G, Xue Y, Wing R, Jiang J, Han B. A fine physical map of the rice chromosome 4. Genome Res. 2002 May;12(5):817-23. [PubMed]
*Note: My name (Zehua Chen) in this paper was misspelled as "Zhehua Chen".

Chen ZH, Zhou B, Han B, Qian YM, Hong GF. Structural analysis of a gene cluster encoding two cationic and three anionic peroxidases from rice chromosome 4. Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao. 2001;33(2):163-172. [PubMed]

Zhou B, Chen ZH, Han B, Hong GF. Identification and structural analysis of a class of potentially transposable Solo-LTR in rice genome. Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao. 2001;33(2):158-162. [PubMed]

Liu ST, Chang WZ, Cao HM, Hu HL, Chen ZH, Ni FD, Lu HF, Hong GF. A HU-like protein binds to specific sites within nod promoters of Rhizobium leguminosarum. J Biol Chem. 1998 Aug 7;273(32):20568-74. [PubMed]