FASIM: Fragments Assembly Simulation using Biased-Sampling Model and Assembly Simulation for Microbial Genome Shotgun Sequencing
![]() |
Hur Cheol-Goo
(Division of Genomics and Proteomics, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Bioinformatics Cooperative Course, Pusan National University)
Kim Sunny (Division of Genomics and Proteomics, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) Kim Chang-Hoon (Division of Genomics and Proteomics, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) Yoon Sung-Ho (Division of Genomics and Proteomics, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) In Yong-Ho (Bioinfomatix, Inc.) Kim Cheol-Min (Bioinformatics Cooperative Course, Pusan National University) Cho Hwan-Gue (Bioinformatics Cooperative Course, Pusan National University) |
1 | Lee, D.-H., W. J. Jun, J. W. Yoon, H. Y. Cho, and B. S. Hong. 2004. Process strategies to enhance the production of 5-aminolevulinic acid with recombinant E. coli. J. Microbiol. Biotechnol. 16: 1310-1317 |
2 | Lim, S. Y., K. H. Yong, and S. Y. Ry. 2005. Analysis of Salmonella pathogenicity island 1 expression in response to the changes of osmolarity. J. Microbiol. Biotechnol. 15: 175-182 과학기술학회마을 DOI ScienceOn |
3 | Pop, M., S. Salzberg, and M. Shumway. 2002. Genome sequence assembly: Algorithms and issues. IEEE Computer 35: 47-54 |
4 | Engle, M. L. and C. Burks. 1994. Artificially generated data sets for testing DNA sequence assembly algorithms. Genomics 16: 286-288 DOI ScienceOn |
5 | Kim, H. W., K. M. Kim, E. J. Ko, S. K. Lee, S. D. Ha, K. B. Song, S. K. Park, K. S. Kwon, and D. H. Bae. 2004. Development of antimicrobial edible film from defatted soybean meal fermented by Bacillus subtilis. J. Microbiol. Biotechnol. 14: 1303-1309 |
6 | Roach, J. C., C. Boysen, K. Wang, and L. Hood. 1995. Pairwise end sequencing: A unified approach to genomic mapping and sequencing. Genomics 26: 345-353 DOI ScienceOn |
7 | Lee, P. C., S. Y. Lee, S. H. Hong, and H. N. Chang. 2002. Isolation and characterization of a new succinic acid-producing bacterium, Mannheimia succiniciproducens MBEL55E, from bovine rumen. Appl. Microbiol. Biotechnol. 58: 663-668 DOI |
8 | Myers, G. 1999. A dataset generator for whole genome shotgun sequencing. Proc. Int. Conf. Intell. Syst. Mol. Biol. pp. 202-210 |
9 | Ewing, B., L. Hillier, M. Wendl, and P. Green. 1998. Basecalling of automated sequencer traces using Phred. I. Accuracy assessment. Genome Res. 8: 175-185 DOI |
10 | Huang, X. and A. Madan. 1999. CAP3: A DNA sequence assembly program. Genome Res. 9: 868-877 DOI |
11 | Lander, E. S. and M. S. Waterman. 1988. Genomic mapping by fingerprinting random clones: A mathematical analysis. Genomics 2: 231-239 DOI |
12 | Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25: 3389-3402 DOI |
13 | May, B. J., Q. Zhang, L. L. Li, M. L. Paustian, T. S. Whittam, and V. Kapur. 2001. Complete genomic sequence of Pasteurella multocida, Pm70. Proc. Natl. Acad. Sci. USA 98: 3460-3465 |
14 | Kang, S. A., J. C. Lee, Y. M. Park, C. Lee, S. H. Kim, B. I. Chang, C. H. Kim, J. W. Seo, S. K. Rhee, S. J. Jung, S. M. Kim, S. K. Park, and K. I. Jang. 2004. Secretory production of Rahnella aquatilis ATCC 33071 levansucrase expressed in Escherichia coli. J. Microbiol. Biotechnol. 14: 1232-1238 |
15 | Myers, G. 1999. Whole-genome DNA sequencing. Comput. Sci. Eng. 1: 33-43 DOI ScienceOn |
![]() |