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lqzhang's picture

Liqing Zhang

Assistant Professor

Office: 2160K Torgersen
Email: lqzhang@vt.edu
Phone: (540) 231-9413
Website: http://people.cs.vt.edu/~lqzhang/
Office Hours: R: 2:00 to 3:30 p.m.
  • About
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Research Interests
  • Computational Biology and Bioinformatics

Liqing Zhang is an assistant professor in the Department of Computer Science at Virginia Tech. She is also a faculty in the GBCB (Genetics, Bioinformatics and Computational Biology) graduate program. Her research interests include evolutionary and comparative genomics, population genetics, computational biology, and bioinformatics. Dr. Zhang completed her Ph.D. in molecular evolution and population genetics at the University of California, Irvine.

labs-zhang-logo.JPG

Computational and Evolutionary Genomics

URL: http://bioinformatics.cs.vt.edu/~zhanglab
Contact: Liqing Zhang

We analyze genomes to infer interesting evolutionary events, with a focus on the divergence of duplicated genes in both primary sequences and function. We develop methods to analyze the human SNPs (single nucleotide polymorphisms) to understand the associations between different genetic diseases. We also develop open source software and online databases for analyzing high throughput data. We are currently developing a program for detecting gene conversion (non-reciprocal transfer of genetic information from one sequence to another) using machine learning approach.

2008
Lawson M J., Zhang L., "Housekeeping and tissue-specific genes differ in simple sequence repeats in the 5'-UTR region.", Gene, vol. 407, no. 1-2, pp. 54-62, 2008. Abstract Tagged BibTex xml
Yang K., Zhang L., "Performance comparison between k-tuple distance and four model-based distances in phylogenetic tree reconstruction.", Nucleic Acids Res, vol. 36, no. 5, pp. e33, 2008. Abstract Tagged BibTex xml
Yang K., Zhang L., "Performance comparison of gene family clustering methods with expert curated gene family data set in Arabidopsis thaliana.", Planta, vol. 228, no. 3, pp. 439-47, 2008. Abstract Tagged BibTex xml
Sanna C R., Li W H., Zhang L., "Overlapping genes in the human and mouse genomes.", BMC Genomics, vol. 9, pp. 169, 2008. Abstract Tagged BibTex xml
Zhang L., "Adaptive Evolution and Frequent Gene Conversion in the Brain Expressed X-Linked Gene Family in Mammals.", Biochem Genet, 2008. Abstract Tagged BibTex xml
2007
Shoja V., Murali T M., Zhang L., "Expression Divergence of Tandemly Arrayed Genes in Human and Mouse", Comparative and Functional Genomics, vol. 2007, pp. Article ID 60964, 8 pages, 2007. Tagged BibTex xml
Shoja V., Murali T M., Zhang L., "Expression divergence of tandemly arrayed genes in human and mouse.", Comp Funct Genomics, pp. 60964, 2007. Abstract Tagged BibTex xml
Zhang L., Watson L T., "Note on the computation of critical effective population sizes.", J Comput Biol, vol. 14, no. 7, pp. 950-60, 2007. Abstract Tagged BibTex xml
Pan D., Zhang L., "Quantifying the major mechanisms of recent gene duplications in the human and mouse genomes: a novel strategy to estimate gene duplication rates.", Genome Biol, vol. 8, no. 8, pp. R158, 2007. Abstract Tagged BibTex xml
2006
Lawson M J., Zhang L., "Distinct patterns of SSR distribution in the Arabidopsis thaliana and rice genomes.", Genome Biol, vol. 7, no. 2, pp. R14, 2006. Abstract Tagged BibTex xml
Shoja V., Zhang L., "A roadmap of tandemly arrayed genes in the genomes of human, mouse, and rat.", Mol Biol Evol, vol. 23, no. 11, pp. 2134-41, 2006. Abstract Tagged BibTex xml
2005
Zhang L., Lu H H., Chung W Y., Yang J., Li W H., "Patterns of segmental duplication in the human genome.", Mol Biol Evol, vol. 22, no. 1, pp. 135-41, 2005. Abstract Tagged BibTex xml
Zhang L., Li W H., "Human SNPs reveal no evidence of frequent positive selection.", Mol Biol Evol, vol. 22, no. 12, pp. 2504-7, 2005. Abstract Tagged BibTex xml
2004
Zhang L., Li W H., "Mammalian housekeeping genes evolve more slowly than tissue-specific genes.", Mol Biol Evol, vol. 21, no. 2, pp. 236-9, 2004. Abstract Tagged BibTex xml
2003
Zhang L., Gaut B S., "Does recombination shape the distribution and evolution of tandemly arrayed genes (TAGs) in the Arabidopsis thaliana genome?", Genome Res, vol. 13, no. 12, pp. 2533-40, 2003. Abstract Tagged BibTex xml
2002
Zhang L., Peek A S., Dunams D., Gaut B S., "Population genetics of duplicated disease-defense genes, hm1 and hm2, in maize (Zea mays ssp. mays L.) and its wild ancestor (Zea mays ssp. parviglumis).", Genetics, vol. 162, no. 2, pp. 851-60, 2002. Abstract Tagged BibTex xml
Zhang L., Vision T J., Gaut B S., "Patterns of nucleotide substitution among simultaneously duplicated gene pairs in Arabidopsis thaliana.", Mol Biol Evol, vol. 19, no. 9, pp. 1464-73, 2002. Abstract Tagged BibTex xml
2001
Zhang L., Pond S K., Gaut B S., "A survey of the molecular evolutionary dynamics of twenty-five multigene families from four grass taxa.", J Mol Evol, vol. 52, no. 2, pp. 144-56, 2001. Abstract Tagged BibTex xml
Zhang L., Gaut B S., Vision T J., "Gene duplication and evolution.", Science, vol. 293, no. 5535, pp. 1551, 2001. Tagged BibTex xml

2000 Level Courses

  • CS2204: UNIX

3000 Level Courses

  • CS3824: Introduction to Computational Biology and Bioinformatics

4000 Level Courses

  • CS4114: Introduction to Formal Languages and Automata Theory

5000 Level Courses

  • CS5045: Computation for the Life Sciences

6000 Level Courses

  • CS6824: Advanced Topics in Computational Biology and Bioinformatics

A High Throughtput Approach To The Assignment Of Orthologous Genes Base On Genome Rearrangement

Granting Institution: National Science Foundation
Amount: $60,560

Advanced Institutional Transformation Award: Virginia Tech

Granting Institution: National Science Foundation
Amount: $13,510

Genome-Wide Identification of STAT5 Binding Sequences in Cattle

Granting Institution: USDA / CSREES
Amount:

III-CXT: Collaborative Research: A High-Throughput Approach to the Assignment of Orthologous Genes Based on Genome Rearrangement

Granting Institution: National Science Foundation
Amount:

 
 
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