Chun-Ting Zhang

Articles in Scholarly Journals [Incomplete List]

  1. Accurate Localization of the Integration Sites of Two Genomic Islands at Single-Nucleotide Resolution in the Genome of Bacillus cereus ATCC 10987
    Comparative and Functional Genomics, vol. 2008, Article ID 451930, 6 pages, 2008
  2. DoriC: a database of oriC regions in bacterial genomes
    Bioinformatics, vol. 23, no. 14, pp. 1866–1867, 2007
  3. GC-Profile: a web-based tool for visualizing and analyzing the variation of GC content in genomic sequences
    Nucleic Acids Research, vol. 34, no. Web Server, pp. W686–W691, 2006
  4. BMC Bioinformatics, vol. 7, no. 1, p. 9, 2006
  5. (1R,5R,6R)-Ethyl 3-benzyl-2,4-dioxo-3-azabicyclo[3.1.0]hexane-6-carboxylate
    Acta Crystallographica Section E Structure Reports Online, vol. 62, no. 6, pp. o2331–o2332, 2006
  6. (R)-(–)-6-(4-Aminophenyl)-5-methyl-4,5-dihydropyridazin-3(2H)-one
    Acta Crystallographica Section E Structure Reports Online, vol. 62, no. 7, pp. o2999–o3000, 2006
  7. Isochore structures in the chicken genome
    FEBS Journal, vol. 273, no. 8, pp. 1637–1648, 2006
  8. The impact of comparative genomics on infectious disease research
    Microbes and Infection, vol. 8, no. 6, pp. 1613–1622, 2006
  9. Coronavirus phylogeny based on a geometric approach
    Molecular Phylogenetics and Evolution, vol. 36, no. 2, pp. 224–232, 2005
  10. Genomic Islands in the Corynebacterium efficiens Genome
    Applied and Environmental Microbiology, vol. 71, no. 6, pp. 3126–3130, 2005
  11. Segmentation algorithm for DNA sequences
    Physical Review E, vol. 72, no. 4, 2005
  12. Industrial & Engineering Chemistry Research, vol. 44, no. 18, pp. 7057–7061, 2005
  13. Genomic islands in Rhodopseudomonas palustris
    Nature Biotechnology, vol. 22, no. 9, Article ID nbt0904-1078b, 1 pages, 2004
  14. Gene Recognition Based on Nucleotide Distribution of ORFs in a Hyper-Thermophilic Crenarchaeon, Aeropyrum Pernix K1
    DNA Research, vol. 11, no. 6, pp. 361–370, 2004
  15. A systematic method to identify genomic islands and its applications in analyzing the genomes of Corynebacterium glutamicum and Vibrio vulnificus CMCP6 chromosome I
    Bioinformatics, vol. 20, no. 5, pp. 612–622, 2004
  16. Comparison of various algorithms for recognizing short coding sequences of human genes
    Bioinformatics, vol. 20, no. 5, pp. 673–681, 2004
  17. Isochore structures in the mouse genome
    Genomics, vol. 83, no. 3, pp. 384–394, 2004
  18. GS-Finder: a program to find bacterial gene start sites with a self-training method
    The International Journal of Biochemistry & Cell Biology, vol. 36, no. 3, pp. 535–544, 2004
  19. A nucleotide composition constraint of genome sequences
    Computational Biology and Chemistry, vol. 28, no. 2, pp. 149–153, 2004
  20. Isochore Structures in the Genome of the Plant Arabidopsis thaliana
    Journal of Molecular Evolution, vol. 59, no. 2, pp. 227–238, 2004
  21. Identification of replication origins in the genome of the methanogenic archaeon, Methanocaldococcus jannaschii
    Extremophiles, vol. 8, no. 3, pp. 253–258, 2004
  22. Identification of isochore boundaries in the human genome using the technique of wavelet multiresolution analysis
    Biochemical and Biophysical Research Communications, vol. 311, no. 1, pp. 215–222, 2003
  23. The Z curve database: a graphic representation of genome sequences
    Bioinformatics, vol. 19, no. 5, pp. 593–599, 2003
  24. ZCURVE: a new system for recognizing protein-coding genes in bacterial and archaeal genomes
    Nucleic Acids Research, vol. 31, no. 6, pp. 1780–1789, 2003
  25. Identification of genomic islands in the genome of Bacillus cereus by comparative analysis with Bacillus anthracis
    Physiological Genomics, vol. 16, no. 1, pp. 19–23, 2003
  26. Q9, a content-balancing accuracy index to evaluate algorithms of protein secondary structure prediction
    The International Journal of Biochemistry & Cell Biology, vol. 35, no. 8, pp. 1256–1262, 2003
  27. Multiple replication origins of the archaeon Halobacterium species NRC-1
    Biochemical and Biophysical Research Communications, vol. 302, no. 4, pp. 728–734, 2003
  28. Seven GC-rich microbial genomes adopt similar codon usage patterns regardless of their phylogenetic lineages
    Biochemical and Biophysical Research Communications, vol. 306, no. 1, pp. 310–317, 2003
  29. ZCURVE_CoV: a new system to recognize protein coding genes in coronavirus genomes, and its applications in analyzing SARS-CoV genomes
    Biochemical and Biophysical Research Communications, vol. 307, no. 2, pp. 382–388, 2003
  30. Analysis of nucleotide distribution in the genome of Streptomyces coelicolor A3(2) using the Z curve method
    FEBS Letters, vol. 540, no. 1-3, pp. 188–194, 2003
  31. Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes
    FEBS Letters, vol. 553, no. 3, pp. 451–456, 2003
  32. An isochore map of the human genome based on the Z curve method
    Gene, vol. 317, pp. 127–135, 2003
  33. A graphic representation of protein sequence and predicting the subcellular locations of prokaryotic proteins
    The International Journal of Biochemistry & Cell Biology, vol. 34, no. 3, pp. 298–307, 2002
  34. Using a Euclid distance discriminant method to find protein coding genes in the yeast genome
    Computers & Chemistry, vol. 26, no. 3, pp. 195–206, 2002
  35. Single replication origin of the archaeon Methanosarcina mazei revealed by the Z curve method
    Biochemical and Biophysical Research Communications, vol. 297, no. 2, pp. 396–400, 2002
  36. Recognizing shorter coding regions of human genes based on the statistics of stop codons
    Biopolymers, vol. 63, no. 3, pp. 207–216, 2002
  37. A refined accuracy index to evaluate algorithms of protein secondary structure prediction
    Proteins: Structure, Function, and Genetics, vol. 43, no. 4, pp. 520–522, 2001
  38. A New Approach to Predict the Helix/Strand Content of Globular Proteins
    Journal of Theoretical Biology, vol. 208, no. 1, pp. 65–78, 2001
  39. Prediction of the subcellular location of prokaryotic proteins based on the hydrophobicity index of amino acids
    International Journal of Biological Macromolecules, vol. 28, no. 3, pp. 255–261, 2001
  40. Identification of protein-coding genes in the genome of Vibrio cholerae with more than 98% accuracy using occurrence frequencies of single nucleotides
    European Journal of Biochemistry, vol. 268, no. 15, pp. 4261–4268, 2001
  41. Journal of Protein Chemistry, vol. 19, no. 4, pp. 269–275, 2000
  42. Recognition of protein coding genes in the yeast genome at better than 95% accuracy based on the Z curve
    Nucleic Acids Research, vol. 28, no. 14, pp. 2804–2814, 2000
  43. S curve, a graphic representation of protein secondary structure sequence and its applications
    Biopolymers, vol. 53, no. 7, pp. 539–549, 2000
  44. A Quadratic Discriminant Analysis of Protein Structure Classification Based on the Helix/Strand Content
    Journal of Theoretical Biology, vol. 201, no. 3, pp. 189–199, 1999
  45. Prediction of protein (domain) structural classes based on amino-acid index
    European Journal of Biochemistry, vol. 266, no. 3, pp. 1043–1049, 1999
  46. A new criterion to classify globular proteins based on their secondary structure contents
    Bioinformatics, vol. 14, no. 10, pp. 857–865, 1998
  47. A new fourier transform approach for protein coding measure based on the format of the Z curve
    Bioinformatics, vol. 14, no. 8, pp. 685–690, 1998
  48. Journal of Protein Chemistry, vol. 17, no. 3, pp. 261–272, 1998
  49. A new quantitative criterion to distinguish between a/ß and a+ß proteins (domains)
    FEBS Letters, vol. 440, no. 1-2, pp. 153–157, 1998
  50. A Novel Approach to Distinguish Between Intron-containing and Intronless Genes Based on the Format of Z Curves
    Journal of Theoretical Biology, vol. 192, no. 4, pp. 467–473, 1998
  51. Prediction and classification of domain structural classes
    Proteins: Structure, Function, and Genetics, vol. 31, no. 1, pp. 97–103, 1998
  52. Prediction of ß-turns in proteins by 1-4 and 2-3 correlation model
    Biopolymers, vol. 41, no. 6, pp. 673–702, 1997
  53. Disposition of amphiphilic helices in heteropolar environments
    Proteins: Structure, Function, and Genetics, vol. 28, no. 1, pp. 99–108, 1997
  54. A Symmetrical Theory of DNA Sequences and Its Applications
    Journal of Theoretical Biology, vol. 187, no. 3, pp. 297–306, 1997
  55. Study on the Isentropic Equations of Nucleotide Sequences and Their Application
    Journal of Theoretical Biology, vol. 181, no. 3, pp. 197–202, 1996
  56. An analysis of base frequencies in the anti-sense strands corresponding to the 180 human protein coding sequences
    Amino Acids, vol. 10, no. 3, pp. 253–262, 1996
  57. Beat motion in DNA double helix and a mechanism of energy exchange between its two strands with microwave frequency
    Chemical Physics, vol. 206, no. 3, pp. 271–277, 1996
  58. A vector projection method for predicting supersecondary motifs
    Journal of Protein Chemistry, vol. 15, no. 8, pp. 721–729, 1996
  59. Prediction of the secondary structure content of globular proteins based on structural classes
    Journal of Protein Chemistry, vol. 15, no. 8, pp. 775–786, 1996
  60. Monte Carlo simulation studies on the prediction of protein folding types from amino acid composition
    Journal of Protein Chemistry, vol. 14, no. 4, pp. 251–258, 1995
  61. An eigenvalue-eigenvector approach to predicting protein folding types
    Journal of Protein Chemistry, vol. 14, no. 5, pp. 309–326, 1995
  62. An analysis of protein folding type prediction by seed-propagated sampling and jackknife test
    Journal of Protein Chemistry, vol. 14, no. 7, pp. 583–593, 1995
  63. A Graphic Approach to Analyzing Codon Usage in 1562 Escherichia coli Protein Coding Sequences
    Journal of Molecular Biology, vol. 238, no. 1, pp. 1–8, 1994
  64. A Joint Prediction of the Folding Types of 1490 Human Proteins from their Genetic Codons
    Journal of Theoretical Biology, vol. 161, no. 2, pp. 251–262, 1993
  65. A weighting method for predicting protein structural class from amino acid composition
    European Journal of Biochemistry, vol. 210, no. 3, pp. 747–749, 1992
  66. The study of stacking energy for natural DNA sequences
    Journal of Theoretical Biology, vol. 149, no. 2, pp. 257–263, 1991
  67. Diagrammatic representation of the distribution of DNA bases and its applications
    International Journal of Biological Macromolecules, vol. 13, no. 1, pp. 45–49, 1991
  68. Analysis of patterns of twist angles in DNA double helix
    International Journal of Biological Macromolecules, vol. 12, no. 4, pp. 226–232, 1990
  69. Equations between frequencies of amino acids in organisms
    Journal of Theoretical Biology, vol. 142, no. 2, pp. 281–284, 1990
  70. Upper limit for the variances of some helical parameters in DNA double helix
    International Journal of Biological Macromolecules, vol. 11, no. 1, pp. 9–12, 1989
  71. Analysis of sequences of twist angles in DNA double helix
    International Journal of Biological Macromolecules, vol. 11, no. 3, pp. 165–168, 1989
  72. Soliton excitations in deoxyribonucleic acid (DNA) double helices
    Physical Review A, vol. 35, no. 2, pp. 886–891, 1987