Fragment assembly with double-barreled data

Bioinformatics

Volumn 17, Issue SUPPL. 1, 2001, Pages

  Pevzner, Pavel A ^a   Tang, Haixu ^b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; BIOLOGICAL MODEL; BIOLOGY; DNA SEQUENCE; GENETIC PROCEDURES; GENOME; NUCLEIC ACID HYBRIDIZATION; STATISTICS;

ALGORITHMS; COMPUTATIONAL BIOLOGY; GENETIC TECHNIQUES; GENOME; MODELS, GENETIC; NUCLEIC ACID HYBRIDIZATION; SEQUENCE ANALYSIS, DNA;

EID: 0035232164     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/17.suppl_1.S225     Document Type: Article

References (19)

1. Bonfield, J. K., K. F. Smith, and R. Staden (1995). A new DNA sequence assembly program. Nucleic Acids Research 23, 4992-4999.
2. Drmanac, R., I. Labat, I. Brukner, and R. Crkvenjakov (1989). Sequencing of megabase plus DNA by hybridization: theory of the method. Genomics 4, 114-128.
3. Fleischmann, R. and et al. (1995). Whole-genome random sequencing and assembly of haemophilus influenzae. Science 269, 496-512.
4. Gordon, D., C. Abajian, and P. Green (1998). Consed: a graphical tool for sequence finishing. Genome Research 8, 195-202.
5. Green, P. (1994). Documentation for phrap. http://www.genome.\vashington.edu/UWGC/ analysis-tools/phrap.htm.
6. Grotschel, M., L. Lovasz, and A. Schrijver (1993). Geometric Algorithms and Combinatorial Optimization. Springer-Verlag.
7. Huang, X. and A. Madan (1999). CAP3: A DNA sequence assembly program. Genome Research 9, 868-877.
8. Kececioglu, J. and E. Myers (1995). Combinatorial algorithms for DNA sequence assembly. Algorithmica 13, 7-51.
9. Kent, W. and D. Haussler (2001). Assembly of the working draft of the human genome with gigassembler. (submitted).
10. Lysov, Y., V. Florent'ev, A. Khorlin, K. Khrapko, V. Shik, and A. Mirzabekov (1988). DNA sequencing by hybridization with oligonucleotides. Doklady Academy Nauk USSR 303, 1508-1511.
11. Myers, E. M. (1995). Toward simplifying and accurately formulating fragment assembly. Journal of Computational Biology 2, 275-290.
12. Myers, E. W., G. G. Sutton, A. L. Delcher, I. M. Dew, D. P. Fasulo, M. J. Flanigan, S. A. Kravitz, C. M. Mobarry, K. H. Reinert, K. A. Remington, E. L. Anson, R. A. Bolanos, H. H. Chou, C. M. Jordan, A. L. Halpern, S. Lonardi, E. M. Beasley, R. C. Brandon, L. Chen, P. J. Dunn, Z. Lai, Y. Liang, D. R. Nusskern, M. Zhan, Q. Zhang, X. Zheng, G. M. Rubin, M. D. Adams, and J. C. Venter (2000). A whole-genome assembly of Drosophila. Science 287, 2196-2204.
13. Peltola, H., H. Soderlund, and E. Ukkonen (1984). SEQAID: a DNA sequence assembling program based on a mathematical model. Nucleic Acids Research 12, 307-321.
14. Pevzner, P. (1989). l-tuple DNA sequencing: computer analysis. Journal of Biomolecular Structure and Dynamics 7, 63-73.
15. Pevzner, P., H. Tang, and M. Waterman (April 2001). A new approach to fragment assembly in DNA sequencing. In Proceedings of the Fifth Annual International Conference on Computational Molecular Biology (RECOMB-01), Montreal, Canada, pp. 256-267. ACM Press.
16. Pevzner, P. A. (2000). Computational Molecular Biology: An Algorithmic Approach. The MIT Press.
17. Roach, J., C. Boysen, K. Wang, and L. Hood (1995). Pairwise end sequencing: a unified approach to genomic mapping and sequencing. Genomics 26, 345-353.
18. Sutton, G., O. White, M. Adams, and A. Kerlavage (1995). TIGR assembler: A new tool for assembling large shotgun sequencing projects. Genome Science & Technology 1, 9-19.
19. Weber, J. and G. Myers (1997). Whole genome shotgun sequencing. Genome Research 7, 401-409.