Design of a compartmentalized shotgun assembler for the human genome - PubMed (original) (raw)
. 2001:17 Suppl 1:S132-9.
doi: 10.1093/bioinformatics/17.suppl_1.s132.
K Reinert, S A Kravitz, K A Remington, A L Delcher, I M Dew, M Flanigan, A L Halpern, Z Lai, C M Mobarry, G G Sutton, E W Myers
Affiliations
- PMID: 11473002
- DOI: 10.1093/bioinformatics/17.suppl_1.s132
Design of a compartmentalized shotgun assembler for the human genome
D H Huson et al. Bioinformatics. 2001.
Abstract
Two different strategies for determining the human genome are currently being pursued: one is the "clone-by-clone" approach, employed by the publicly funded project, and the other is the "whole genome shotgun assembler" approach, favored by researchers at Celera Genomics. An interim strategy employed at Celera, called compartmentalized shotgun assembly, makes use of preliminary data produced by both approaches. In this paper we describe the design, implementation and operation of the "compartmentalized shotgun assembler".
Similar articles
- On the sequencing of the human genome.
Waterston RH, Lander ES, Sulston JE. Waterston RH, et al. Proc Natl Acad Sci U S A. 2002 Mar 19;99(6):3712-6. doi: 10.1073/pnas.042692499. Epub 2002 Mar 5. Proc Natl Acad Sci U S A. 2002. PMID: 11880605 Free PMC article. - A preprocessor for shotgun assembly of large genomes.
Roberts M, Hunt BR, Yorke JA, Bolanos RA, Delcher AL. Roberts M, et al. J Comput Biol. 2004;11(4):734-52. doi: 10.1089/cmb.2004.11.734. J Comput Biol. 2004. PMID: 15579242 - BAC finishing strategies.
Bird C, Grafham D. Bird C, et al. Methods Mol Biol. 2004;255:255-77. doi: 10.1385/1-59259-752-1:255. Methods Mol Biol. 2004. PMID: 15020831 No abstract available. - The Theory and Practice of Genome Sequence Assembly.
Simpson JT, Pop M. Simpson JT, et al. Annu Rev Genomics Hum Genet. 2015;16:153-72. doi: 10.1146/annurev-genom-090314-050032. Epub 2015 Apr 22. Annu Rev Genomics Hum Genet. 2015. PMID: 25939056 Review. - [Development and application of bacterial artificial chromosome (BAC)-based CGH-array].
Imoto I, Inazawa J. Imoto I, et al. Tanpakushitsu Kakusan Koso. 2005 Dec;50(16 Suppl):2134-9. Tanpakushitsu Kakusan Koso. 2005. PMID: 16411442 Review. Japanese. No abstract available.
Cited by
- The bacterial pangenome as a new tool for analysing pathogenic bacteria.
Rouli L, Merhej V, Fournier PE, Raoult D. Rouli L, et al. New Microbes New Infect. 2015 Jun 26;7:72-85. doi: 10.1016/j.nmni.2015.06.005. eCollection 2015 Sep. New Microbes New Infect. 2015. PMID: 26442149 Free PMC article. - Development and Evaluation of an Enterovirus D68 Real-Time Reverse Transcriptase PCR Assay.
Wylie TN, Wylie KM, Buller RS, Cannella M, Storch GA. Wylie TN, et al. J Clin Microbiol. 2015 Aug;53(8):2641-7. doi: 10.1128/JCM.00923-15. Epub 2015 Jun 10. J Clin Microbiol. 2015. PMID: 26063859 Free PMC article. - Ecotype diversity and conversion in Photobacterium profundum strains.
Lauro FM, Eloe-Fadrosh EA, Richter TK, Vitulo N, Ferriera S, Johnson JH, Bartlett DH. Lauro FM, et al. PLoS One. 2014 May 13;9(5):e96953. doi: 10.1371/journal.pone.0096953. eCollection 2014. PLoS One. 2014. PMID: 24824441 Free PMC article. - Draft Genome Sequence of the Fish Pathogen Piscirickettsia salmonis.
Eppinger M, McNair K, Zogaj X, Dinsdale EA, Edwards RA, Klose KE. Eppinger M, et al. Genome Announc. 2013 Nov 7;1(6):e00926-13. doi: 10.1128/genomeA.00926-13. Genome Announc. 2013. PMID: 24201203 Free PMC article. - Whole-Genome Draft Sequences of 26 Enterohemorrhagic Escherichia coli O157:H7 Strains.
Eppinger M, Daugherty S, Agrawal S, Galens K, Sengamalay N, Sadzewicz L, Tallon L, Cebula TA, Mammel MK, Feng P, Soderlund R, Tarr PI, Debroy C, Dudley EG, Fraser CM, Ravel J. Eppinger M, et al. Genome Announc. 2013 Feb 28;1(2):e0013412. doi: 10.1128/genomeA.00134-12. Genome Announc. 2013. PMID: 23516226 Free PMC article.
MeSH terms
LinkOut - more resources
Full Text Sources
Other Literature Sources