User:Tong Zhou

Tong Zhou

Tong Zhou, Research Assistant Professor
Institute for Personalized Respiratory Medicine
Section of Pulmonary, Critical Care, and Sleep Medicine
Department of Medicine
The University of Illinois at Chicago, Chicago, Illinois 60612
Email: tongzhou@uic.edu, Tel: 312-355-5933

Former Position

• 2006 - 2010, Postdoc, Center for Computational Biology and Bioinformatics and Section of Integrative Biology, The University of Texas at Austin

Education

• 2006, PhD, Southeast University, China
• 2002, MS, Southeast University, China
• 2000, BS, Southeast University, China

Research interests

1. Computational Biology
2. Bioinformatics

Publications

1. Lee Y, Zhou T, Tartaglia GG, Vendruscolo M, and Wilke CO. Translationally optimal codons associate with aggregation-prone sites in proteins. Proteomics. 2010 Dec;10(23):4163-71. DOI:10.1002/pmic.201000229 |
2. Zhou T, Gu W, and Wilke CO. Detecting positive and purifying selection at synonymous sites in yeast and worm. Mol Biol Evol. 2010 Aug;27(8):1912-22. DOI:10.1093/molbev/msq077 |
3. Novella IS, Presloid JB, Zhou T, Smith-Tsurkan SD, Ebendick-Corpus BE, Dutta RN, Lust KL, and Wilke CO. Genomic evolution of vesicular stomatitis virus strains with differences in adaptability. J Virol. 2010 May;84(10):4960-8. DOI:10.1128/JVI.00710-09 |
4. Gu W, Zhou T, and Wilke CO. A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes. PLoS Comput Biol. 2010 Feb 5;6(2):e1000664. DOI:10.1371/journal.pcbi.1000664 |

   The first two authors contributed equally to this work Featured in GenomeWeb Daily Scan

5. Zhou T, Weems M, and Wilke CO. Translationally optimal codons associate with structurally sensitive sites in proteins. Mol Biol Evol. 2009 Jul;26(7):1571-80. DOI:10.1093/molbev/msp070 |
6. Zhou T, Enyeart PJ, and Wilke CO. Detecting clusters of mutations. PLoS One. 2008;3(11):e3765. DOI:10.1371/journal.pone.0003765 |
7. Zhou T, Drummond DA, and Wilke CO. Contact density affects protein evolutionary rate from bacteria to animals. J Mol Evol. 2008 Apr;66(4):395-404. DOI:10.1007/s00239-008-9094-4 |
8. Zhou T, Weng J, Sun X, and Lu Z. Support vector machine for classification of meiotic recombination hotspots and coldspots in Saccharomyces cerevisiae based on codon composition. BMC Bioinformatics. 2006 Apr 26;7:223. DOI:10.1186/1471-2105-7-223 |
9. Zhou T, Sun X, and Lu Z. Synonymous codon usage in environmental chlamydia UWE25 reflects an evolutional divergence from pathogenic chlamydiae. Gene. 2006 Mar 1;368:117-25. DOI:10.1016/j.gene.2005.10.035 |
10. Zhou T, Lu ZH, and Sun X. The Correlation between Recombination Rate and Codon Bias in Yeast Mainly Results from Mutational Bias Associated with Recombination Rather than Hill-Robertson Interference. Conf Proc IEEE Eng Med Biol Soc. 2005;2005:4787-90. DOI:10.1109/IEMBS.2005.1615542 |
11. Zhou T, Gu W, Ma J, Sun X, and Lu Z. Analysis of synonymous codon usage in H5N1 virus and other influenza A viruses. Biosystems. 2005 Jul;81(1):77-86. DOI:10.1016/j.biosystems.2005.03.002 |
12. Gu W, Zhou T, Ma J, Sun X, and Lu Z. Analysis of synonymous codon usage in SARS Coronavirus and other viruses in the Nidovirales. Virus Res. 2004 May;101(2):155-61. DOI:10.1016/j.virusres.2004.01.006 |
13. Gu W, Zhou T, Ma J, Sun X, and Lu Z. The relationship between synonymous codon usage and protein structure in Escherichia coli and Homo sapiens. Biosystems. 2004 Feb;73(2):89-97. DOI:10.1016/j.biosystems.2003.10.001 |
14. Gu W, Zhou T, Ma J, Sun X, and Lu Z. Folding type specific secondary structure propensities of synonymous codons. IEEE Trans Nanobioscience. 2003 Sep;2(3):150-7. DOI:10.1109/tnb.2003.817024 |
15. Ma J, Zhou T, Gu W, Sun X, and Lu Z. Cluster analysis of the codon use frequency of MHC genes from different species. Biosystems. 2002 Mar-May;65(2-3):199-207. DOI:10.1016/s0303-2647(02)00016-3 |

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