A scaffold analysis tool using mate-pair information in genome sequencing

Journal of Biomedicine and Biotechnology

Volumn 2008, Issue 1, 2008, Pages

  Kim, Pan Gyu ^a   Cho, Hwan Gue ^b   Park, Kiejung ^a  

^a SmallSoft Co Ltd   (South Korea)

^b Pusan National University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GENOME; COMPUTER PROGRAM; CONTROLLED STUDY; GENE SEQUENCE; INFORMATION PROCESSING; MANNHEIMIA; MANNHEIMIA SUCCINICIPRODUCENS; NONHUMAN; VIBRIO VULNIFICUS; ALGORITHM; BASE MISPAIRING; CONTIG MAPPING; DNA SEQUENCE; METHODOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; SEQUENCE ALIGNMENT;

MANNHEIMIA SUCCINICIPRODUCENS;

ALGORITHMS; BASE PAIR MISMATCH; BASE SEQUENCE; CONTIG MAPPING; MOLECULAR SEQUENCE DATA; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SOFTWARE;

EID: 42949139823     PISSN: 11107243     EISSN: 11107251     Source Type: Journal    
DOI: 10.1155/2008/675741     Document Type: Article

References (13)

1. Lander E. S., Linton L. M., Birren B., Initial sequencing and analysis of the human genome Nature 2001 409 860 921
2. Venter J. C., Adams M D., Myers E. W., The sequence of the human genome Science 2001 291 5507 1304 1351
3. Fleischmann R. D., Adams M. D., White O., Whole-genome random sequencing and assembly of Haemophilus influenzae Rd Science 1995 269 5223 496 512
4. Myers E. W., Whole-genome DNA sequencing Computing in Science & Engineering 1999 1 3 33 43
5. Weber J. L., Myers E. W., Human whole-genome shotgun sequencing Genome Research 1997 7 5 401 409
6. Magrini V., Warren W. C., Wallis J., Fosmid-based physical mapping of the Histoplasma capsulatum genome Genome Research 2004 14 8 1603 1609
7. Kent W. J., Haussler D., Assembly of the working draft of the human genome with GigAssembler Genome Research 2001 11 9 1541 1548
8. Huson D. H., Reinert K., Myers E. W., The greedy path-merging algorithm for contig scaffolding Journal of the ACM 2002 49 5 603 615
9. Gordon D., Abajian C., Green P., Consed: a graphical tool for sequence finishing Genome Research 1998 8 3 195 202
10. Gordon D., Desmarais C., Green P., Automated finishing with autofinish Genome Research 2001 11 4 614 625
11. Phrap. http://www.genome.washington.edu/UWGC/analysistools/Phrap.cfm
12. Pop M., Kosack D. S., Salzberg S. L., Hierarchical scaffolding with Bambus Genome Research 2004 14 1 149 159
13. Hong S. H., Kim J. S., Lee S. Y., The genome sequence of the capnophilic rumen bacterium Mannheimia succiniciproducens Nature Biotechnology 2004 22 10 1275 1281