Hui Hsien Chou

Summary

Affiliation: Iowa State University
Country: USA

Publications

  1. pmc A two-genome microarray for the rice pathogens Xanthomonas oryzae pv. oryzae and X. oryzae pv. oryzicola and its use in the discovery of a difference in their regulation of hrp genes
    Young Su Seo
    Department of Plant Pathology, University of California, Davis, CA 95616, USA
    BMC Microbiol 8:99. 2008
  2. ncbi request reprint DNA sequence quality trimming and vector removal
    H H Chou
    Department of Zoology and Genetics, Department of Computer Science, Iowa State University, Ames, IA 50011, USA
    Bioinformatics 17:1093-104. 2001
  3. pmc Shared probe design and existing microarray reanalysis using PICKY
    Hui Hsien Chou
    Department of Genetics, Development and Cell Biology, and Department of Computer Science, Iowa State University, Ames, IA, 50011 3223, USA
    BMC Bioinformatics 11:196. 2010
  4. pmc Direct calibration of PICKY-designed microarrays
    Hui Hsien Chou
    Department of Genetics, Development and Cell Biology and Department of Computer Science, Iowa State University, Ames, IA 50011, USA
    BMC Bioinformatics 10:347. 2009
  5. ncbi request reprint VECT: an automatic visual Perl programming tool for nonprogrammers
    Hui Hsien Chou
    Department of Genetics, Development and Cell Biology and Computer Science, Iowa State University, Ames, IA 50011, USA
    Biotechniques 38:615-21. 2005
  6. ncbi request reprint UBViz: a software tool for exploring metabolic pathways in 3-D space
    Song Li
    Iowa State University, Ames, IA 50011, USA
    Biotechniques 38:540, 542. 2005
  7. ncbi request reprint GRAMA: genetic mapping analysis of temperature gradient capillary electrophoresis data
    Philip M Maher
    Department of Computer Science, Iowa State University, 503 Science II, Ames, IA 50011, USA
    Theor Appl Genet 113:156-62. 2006
  8. ncbi request reprint Efficient combination of multiple word models for improved sequence comparison
    Xiaoqiu Huang
    Department of Computer Science, Iowa State University, Ames, IA 50011 1040, USA
    Bioinformatics 20:2529-33. 2004
  9. ncbi request reprint LUCY2: an interactive DNA sequence quality trimming and vector removal tool
    Song Li
    Department of Computer Science, Iowa State University, Ames, IA 50011, USA
    Bioinformatics 20:2865-6. 2004
  10. pmc Nearly identical paralogs: implications for maize (Zea mays L.) genome evolution
    Scott J Emrich
    Interdepartmental Bioinformatics and Computational Biology Graduate Program, Iowa State University, Ames, Iowa 50011, USA
    Genetics 175:429-39. 2007

Research Grants

Collaborators

Detail Information

Publications12

  1. pmc A two-genome microarray for the rice pathogens Xanthomonas oryzae pv. oryzae and X. oryzae pv. oryzicola and its use in the discovery of a difference in their regulation of hrp genes
    Young Su Seo
    Department of Plant Pathology, University of California, Davis, CA 95616, USA
    BMC Microbiol 8:99. 2008
    ..XOM2, a minimal medium previously reported to induce hrp genes in Xoo strain T7174...
  2. ncbi request reprint DNA sequence quality trimming and vector removal
    H H Chou
    Department of Zoology and Genetics, Department of Computer Science, Iowa State University, Ames, IA 50011, USA
    Bioinformatics 17:1093-104. 2001
    ..This step is necessary before other genomic data processing stages can be carried out, such as fragment assembly or EST clustering. A specialized tool is therefore needed to solve this apparent dilemma...
  3. pmc Shared probe design and existing microarray reanalysis using PICKY
    Hui Hsien Chou
    Department of Genetics, Development and Cell Biology, and Department of Computer Science, Iowa State University, Ames, IA, 50011 3223, USA
    BMC Bioinformatics 11:196. 2010
    ....
  4. pmc Direct calibration of PICKY-designed microarrays
    Hui Hsien Chou
    Department of Genetics, Development and Cell Biology and Department of Computer Science, Iowa State University, Ames, IA 50011, USA
    BMC Bioinformatics 10:347. 2009
    ..Few microarrays have been quantitatively calibrated to identify optimal hybridization conditions because it is difficult to precisely determine the hybridization characteristics of a microarray using biologically variable cDNA samples...
  5. ncbi request reprint VECT: an automatic visual Perl programming tool for nonprogrammers
    Hui Hsien Chou
    Department of Genetics, Development and Cell Biology and Computer Science, Iowa State University, Ames, IA 50011, USA
    Biotechniques 38:615-21. 2005
    ..VECT is released under the GNU General Public License and is freely available for all major computing platforms including Macintosh OS X, Linux, and Microsoft Windows at www.complex.iastate.edu...
  6. ncbi request reprint UBViz: a software tool for exploring metabolic pathways in 3-D space
    Song Li
    Iowa State University, Ames, IA 50011, USA
    Biotechniques 38:540, 542. 2005
  7. ncbi request reprint GRAMA: genetic mapping analysis of temperature gradient capillary electrophoresis data
    Philip M Maher
    Department of Computer Science, Iowa State University, 503 Science II, Ames, IA 50011, USA
    Theor Appl Genet 113:156-62. 2006
    ..GRAMA is written in Java and is freely available at http://www.complex.iastate.edu ...
  8. ncbi request reprint Efficient combination of multiple word models for improved sequence comparison
    Xiaoqiu Huang
    Department of Computer Science, Iowa State University, Ames, IA 50011 1040, USA
    Bioinformatics 20:2529-33. 2004
    ..Studies of efficient and sensitive sequence comparison methods are driven by a need to find homologous regions of weak similarity between large genomes...
  9. ncbi request reprint LUCY2: an interactive DNA sequence quality trimming and vector removal tool
    Song Li
    Department of Computer Science, Iowa State University, Ames, IA 50011, USA
    Bioinformatics 20:2865-6. 2004
    ..Source code is also available for porting to the other platforms. AVAILABILITY: Lucy2 is distributed under the GNU General Public License and can be downloaded from www.complex.iastate.edu..
  10. pmc Nearly identical paralogs: implications for maize (Zea mays L.) genome evolution
    Scott J Emrich
    Interdepartmental Bioinformatics and Computational Biology Graduate Program, Iowa State University, Ames, Iowa 50011, USA
    Genetics 175:429-39. 2007
    ..As such, NIPs may have played important roles during the evolution and domestication of maize and may contribute to the success of long-term selection experiments in this important crop species...
  11. pmc Whole-genome thermodynamic analysis reduces siRNA off-target effects
    Xi Chen
    Department of Genetics, Development and Cell Biology, Iowa State University, Ames, Iowa, USA
    PLoS ONE 8:e58326. 2013
    ..Therefore, we recommend including Picky as an additional screening step in siRNA design...
  12. ncbi request reprint Picky: oligo microarray design for large genomes
    Hui Hsien Chou
    Bioinformatics 20:2893-902. 2004
    ..Also, many existing tools operate in a batch mode that does not assure best designs...

Research Grants1

  1. Visual Data Extraction and Conversion Programming Tool
    Hui Hsien Chou; Fiscal Year: 2005
    ..Therefore, this tool will provide great enabling power to biomedical scientists to help them make rapid advances in biomedical research and medicine. ..