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Degui Zhi, Ph.D.

Degui Zhi, Ph.D. Department of Biostatistics
Ryals Public Health Bldg 327L
University of Alabama at Birmingham
Birmingham, AL 35294
Phone: (205) 975-9192
Fax: (205) 975-2540
E-mail: dzhi@ms.soph.uab.edu
Full CV


Dr. Zhi received his Ph.D. in bioinformatics from University of California, San Diego in 2006. He then took his postdoctoral training in computational genomics at the University of California, Berkeley. He joined the Section on Statistical Genetics at the University of Alabama at Birmingham as an assistant professor in 2009. His current research interests include protein function prediction from structure and bioinformatics and statistical genetics problems relating to next-generation sequencing and rare variants.

Publications
 

  • 2011
  • 2010
  • 2007
  • 2006
  • pre 2006
  1. Christine W. Duarte, Christopher D. Willey, Degui Zhi, Xiangqin Cui, Jacqueline J. Harris, Laura Kelly Vaughan, Tapan Mehta, Raymond O. McCubrey, Nikolai N. Khodarev, Ralph R. Weichselbaum, and G. Yancey Gillespie. Expression signature of IFN/STAT1 signaling genes predicts poor survival outcome in Glioblastoma Multiforme in a subtype-specific manner. PLoS ONE, accepted, 2011.
     
  2. Yi N, Liu N, Zhi D, Li J: Hierarchical Generalized Linear Models for Multiple Groups of Rare and Common Variants: Jointly Estimating Group and Individual-Variants Effects. PLoS Genetics 7(12): e1002382, 2011.
     
  3. Guodong Wu, Nengjun Yi, Devin Absher, and Degui Zhi*. "Statistical Quantification of Methylation Levels by Next-generation Sequencing". PLoS ONE 6(6): e21034, 2011. *Senior Corresponding author.
     
  4. Wenan Chen, Xi Gao, Jiexun Wang, Chuanyu Sun, Wen Wan, Degui Zhi, Nianjun Liu, Xiangning Chen, Guimin Gao. "An Evaluation of Association Tests for Rare Variants by Using Simulated datasets in the GAW17 Data". BMC Proceedings, 5(Suppl 9):S86, 2011.
     
  5. Boshao Zhang, Degui Zhi, Kui Zhang, Guimin Gao, David Allison, Nianjun Liu. "Practical Consideration of Genotype Imputation: Sample Size, Window Size, Reference Choice and Untyped Rate", Statistics and Its Interface, 4(3): 339-352, 2011.
     
  6. Gao L, Fang Z, Zhang K, Zhi D, Cui X. Length Bias Correction for RNA-seq Data in Gene Set Analyses. Bioinformatics. 27(5):662-9, 2011. [Epub ahead of print] [PMID: 21252076]
     
  7. Yi N, Zhi D. Bayesian analysis of rare variants in genetic association studies. Genet Epidemiol. 2011. Jan;35(1):57-69. [PMID: 21181897] [DOI: 10.1002/gepi.20554]
     
  1. A. Aleshin, and D. Zhi*. “Recombination-associated sequence homogenization of neighboring Alu elements: signature of nonallelic gene conversion”, Accepted at Molecular Biology and Evolution. 2010. 27(10):2300-11.*Senior Corresponding author. [PMID: 20453015] [DOI: 10.1093/molbev/msq116]
     
  2. D. Zhi, M. Shatsky, and S.E. Brenner. “Alignment-Free Local Structural Comparison by Writhe Decomposition”, Bioinformatics. 2010. 26: 1176-1184. [DOI: 10.1093/bioinformatics/btq127]
     
  1. D. Zhi. “Sequence correlation between neighboring Alu instances suggests postretrotransposition sequence exchange due to Alu gene conversion”, Gene, 390(1- 2):117-21, 2007. [PMID: 17134854]
     
  2. D. Zhi, U. Keich, P. Pevzner, S. Heber, and H. Tang. “Correcting base-assignment errors in repeat regions of shotgun assembly”, IEEE Transactions of Computational Biology and Bioinformatics, 4(1):54-64, 2007. [PMID: 17277413]
     
  1. D. Zhi, S.S. Krishna, H. Cao, P. Pevzner, and A. Godzik. “Representing and comparing protein structures as curves in three-dimensional space”, BMC Bioinformatics, 7:460, 2006. [PMID: 17052359] [DOI: 10.1186/1471-2105-7-460]
     
  2. N. Jones, D. Zhi, and B. Raphael. “AliWABA: Alignment on the Web through an A-Bruijn Approach”, Nucleic Acid Research, Webserver issue, 34: W613-W616, 2006. [PMID: 16845083]
     
  3. D. Zhi, B. Raphael, A. Price, H. Tang, and P. Pevzner. “Identifying repeat domains in large genomes”, Genome Biology, 7(1):R7, 2006. [PMID: 16507140]
     
  4. S. Roepcke, D. Zhi, M. Vingron, and P. Arndt. “Identification of highly specific localized sequence motifs in human ribosomal protein gene promoters”, Gene, 365:48-56. 2006. [PMID: 16343812]
     
  1. B. Raphael, D. Zhi, H. Tang, and P. Pevzner. “A Novel method for multiple alignment of sequences with repeated and shuffled elements”, Genome Research, 14: 2336-46, 2004. [PMID: 15520295]
     
  2. X. Chen, Z.L. Ji, D.G. Zhi, and Y.Z. Chen. “CLiBE: a database of computed ligand binding energy for ligand/receptor complexes”, Computers & Chemistry. 26(6): 661- 6, 2002. [PMID: 12385480]
     
  3. Y.Z. Chen, and D.G. Zhi. “Ligand-protein inverse docking and its potential use in computer search of putative protein targets of a drug”, Proteins, 43(2): 217-26, 2001. [PMID: 11276090]