Now showing items 1-14 of 14

    • Distinct patterns of SSR distribution in the Arabidopsis thaliana and rice genomes 

      Lawson, Mark J; Zhang, Liqing (2006-02-21)
      Abstract Background Simple sequence repeats (SSRs) in DNA have been traditionally thought of as functionally unimportant and have been studied mainly as genetic markers. A recent handful of studies have shown, however, ...
    • Functional bias in molecular evolution rate of Arabidopsis thaliana 

      Warren, Andrew S; Anandakrishnan, Ramu; Zhang, Liqing (2010-05-01)
      Abstract Background Characteristics derived from mutation and other mechanisms that are advantageous for survival are often preserved during evolution by natural selection. Some genes are conserved in many organisms because ...
    • Functional bias in molecular evolution rate of Arabidopsis thaliana 

      Warren, Andrew S; Anandakrishnan, Ramu; Zhang, Liqing (2010-05-01)
      Abstract Background Characteristics derived from mutation and other mechanisms that are advantageous for survival are often preserved during evolution by natural selection. Some genes are conserved in many organisms because ...
    • Identifying disease associations via genome-wide association studies 

      Huang, Wenhui; Wang, Pengyuan; Liu, Zhen; Zhang, Liqing (2009-01-30)
      Abstract Background Genome-wide association studies prove to be a powerful approach to identify the genetic basis of different human diseases. We studied the relationship between seven diseases characterized in a previous ...
    • Identifying disease associations via genome-wide association studies 

      Huang, Wenhui; Wang, Pengyuan; Liu, Zhen; Zhang, Liqing (2009-01-30)
      Abstract Background Genome-wide association studies prove to be a powerful approach to identify the genetic basis of different human diseases. We studied the relationship between seven diseases characterized in a previous ...
    • A Network of SCOP Hidden Markov Models and Its Analysis 

      Zhang, Liqing; Watson, Layne T; Heath, Lenwood S. (2011-05-23)
      Abstract Background The Structural Classification of Proteins (SCOP) database uses a large number of hidden Markov models (HMMs) to represent families and superfamilies composed of proteins that presumably share the same ...
    • A Network of SCOP Hidden Markov Models and Its Analysis 

      Zhang, Liqing; Watson, Layne T; Heath, Lenwood S. (2011-05-23)
      Abstract Background The Structural Classification of Proteins (SCOP) database uses a large number of hidden Markov models (HMMs) to represent families and superfamilies composed of proteins that presumably share the same ...
    • Overlapping genes in the human and mouse genomes 

      Sanna, Chaitanya R; Li, Wen-Hsiung; Zhang, Liqing (2008-04-14)
      Abstract Background Increasing evidence suggests that overlapping genes are much more common in eukaryotic genomes than previously thought. In this study we identified and characterized the overlapping genes in a set of ...
    • Overlapping genes in the human and mouse genomes 

      Sanna, Chaitanya R; Li, Wen-Hsiung; Zhang, Liqing (2008-04-14)
      Abstract Background Increasing evidence suggests that overlapping genes are much more common in eukaryotic genomes than previously thought. In this study we identified and characterized the overlapping genes in a set of ...
    • Performance evaluation of indel calling tools using real short-read data 

      Hasan, Mohammad S; Wu, Xiaowei; Zhang, Liqing (2015-08-19)
      Abstract Background Insertion and deletion (indel), a common form of genetic variation, has been shown to cause or contribute to human genetic diseases and cancer. With the advance of next-generation sequencing technology, ...
    • Predicting the combined effect of multiple genetic variants 

      Liu, Mingming; Watson, Layne T; Zhang, Liqing (2015-07-30)
      Abstract Background Many genetic variants have been identified in the human genome. The functional effects of a single variant have been intensively studied. However, the joint effects of multiple variants in the same genes ...
    • Quantifying the major mechanisms of recent gene duplications in the human and mouse genomes: a novel strategy to estimate gene duplication rates 

      Pan, Deng; Zhang, Liqing (2007-08-02)
      Abstract Background The rate of gene duplication is an important parameter in the study of evolution, but the influence of gene conversion and technical problems have confounded previous attempts to provide a satisfying ...
    • Quantitative prediction of the effect of genetic variation using hidden Markov models 

      Liu, Mingming; Watson, Layne T; Zhang, Liqing (2014-01-09)
      Abstract Background With the development of sequencing technologies, more and more sequence variants are available for investigation. Different classes of variants in the human genome have been identified, including single ...
    • Vindel: a simple pipeline for checking indel redundancy 

      Li, Zhiyi; Wu, Xiaowei; He, Bin; Zhang, Liqing (2014-11-19)
      Abstract Background With the advance of next generation sequencing (NGS) technologies, a large number of insertion and deletion (indel) variants have been identified in human populations. Despite much research into variant ...