Barnacle: An assembly algorithm for clone-based sequences of whole genomes

Gene

Volumn 320, Issue 1-2, 2003, Pages 165-176

  Choi, Vicky ^a,b   Farach Colton, Martin ^a  

^a RUTGERS UNIVERSITY   (United States)

^b Duke University   (United States)

Author keywords

Clone based sequencing; Sequence assembly algorithm

Indexed keywords

ALGORITHM; ARTICLE; GENE SEQUENCE; GENOME ANALYSIS; HUMAN; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE ANALYSIS;

THORACICA;

EID: 0242266906     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(03)00825-4     Document Type: Article

References (11)

1. Bailey J.A., Gu Z., Clark R.A., Reinert K., Samonte R.V., Schwartz S., Adams M.D., Myers E.W., Li P.W., Eichler E.E. Recent segmental duplications in the human genome. Science. 297:2002;1003-1007.
2. Choi, V., 2001. Barnacle: An Assembly Algorithm for Clone-based Sequences of Whole Genomes. PhD Thesis. Rutgers University, Department of Computer Science.
3. Choi V., Bailey J.A., Schuler G., Gu Z., Li P., Farach-Colton M., Eichler E.E. The sequence and assembly of highly duplicated regions in the human genome. Genome Sequencing and Biology meeting at Cold Spring Harbor Laboratory 2002. 2002.
4. Choi, V., Bailey, J.A., Farach-Colton, M., Eichler, E.E., 2002b. ROPE: empowered Barnacle by a segmental duplication database. In preparation.
5. Corneil, D.G., Olariu, S., Stewart, L., 2003. The LBFS structure and recognition of interval graphs. Submitted for publication.
6. Goldberg P.W., Golumbic M.C., Kaplan H., Shamir R. Four strikes against physical mapping of DNA. Journal of Computational Biology. 2(1):1995;139-152.
7. International Human Genome Sequencing Consortium Initial sequencing and analysis of the human genome. Nature. 409:2001;860-921.
8. Kent K.J., Haussler D. Assembly of the working draft of the human genome with GigAssembler. Genome Research. 11:2001;1541-1548.
9. Myers E.W., Sutton G.G., Delcher A.L., Dew I.M., Fasulo D.P., Flanigan M.J., Kravitz S.A., Mobarry C.M., Reinert K.H.J., Remington K.A. A whole-genome assembly of Drosophila. Science. 287:2000;868-877.
10. The International Human Genome Mapping Consortium A physical map of the human genome. Nature. 409:2001;934-941.
11. Venter J.C., Adams M.D., Myers E.W., Li P.W., Mural R.J., Sutton G.G., Smith H.O., Yandell M., Evans C.A., Holt R.A.et al. The sequence of the human genome. Science. 291:2001;1304-1351.