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LETTER: An intermediate grade of finished genomic sequence suitable for comparative analyses
- Robert W. Blakesley,
- Nancy F. Hansen,
- James C. Mullikin,
- Pamela J. Thomas,
- Jennifer C. McDowell,
- Baishali Maskeri,
- Alice C. Young,
- Beatrice Benjamin,
- Shelise Y. Brooks,
- Bradley I. Coleman,
- Jyoti Gupta,
- Shi-Ling Ho,
- Eric M. Karlins,
- Quino L. Maduro,
- Sirintorn Stantripop,
- Cyrus Tsurgeon,
- Jennifer L. Vogt,
- Michelle A. Walker,
- Catherine A. Masiello,
- Xiaobin Guan,
- NISC Comparative Sequencing Program,
- Gerard G. Bouffard,
- and Eric D. Green
Genome Res. November 2004 14: 2235-2244; Published in Advance October 12, 2004, doi:10.1101/gr.2648404
...to comparative analyses. The strategy of “shotgun sequencing” ( Sanger et al. 1982 ; Wilson and Mardis 1997b ; Green 2001 ) has emerged as the most cost-effective approach for the de novo generation of large amounts of genomic sequence data. Whether applied on individual large-insert clones ( C. elegans...
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GENOME METHODS: Overlapping Genomic Sequences: A Treasure Trove of Single-Nucleotide Polymorphisms
- Patricia Taillon-Miller,
- Zhijie Gu,
- Qun Li,
- LaDeana Hillier,
- and Pui-Yan Kwok
Genome Res. July 1, 1998 8: 748-754; doi:10.1101/gr.8.7.748
...%) were informative in two or more populations, and 23 (34%) were informative in all three populations. These results clearly indicate that developing SNP markers from overlapping genomic sequence is highly efficient and cost effective, requiring only the two simple steps of developing STSs around...
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Research: Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania
- Matthew B. Rogers,
- James D. Hilley,
- Nicholas J. Dickens,
- Jon Wilkes,
- Paul A. Bates,
- Daniel P. Depledge,
- David Harris,
- Yerim Her,
- Pawel Herzyk,
- Hideo Imamura,
- Thomas D. Otto,
- Mandy Sanders,
- Kathy Seeger,
- Jean-Claude Dujardin,
- Matthew Berriman,
- Deborah F. Smith,
- Christiane Hertz-Fowler,
- and Jeremy C. Mottram
Genome Res. December 2011 21: 2129-2142; Published in Advance October 28, 2011, doi:10.1101/gr.122945.111
..., Deborah F. Smith 2 , Christiane Hertz-Fowler 1 , 8 , 10 and Jeremy C. Mottram 3 , 10 1Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SA, United Kingdom; 2Department of Biology, University of York, Heslington, York YO...
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RESOURCE: De novo fragment assembly with short mate-paired reads: Does the read length matter?
- Mark J. Chaisson,
- Dumitru Brinza,
- and Pavel A. Pevzner
Genome Res. February 2009 19: 336-346; Published in Advance December 3, 2008, doi:10.1101/gr.079053.108
...-paired short reads and use it to analyze the question of whether the read length matters. We further complement the ongoing experimental efforts to maximize read length by a new computational approach for increasing the effective read length. While the common practice is to trim the error-prone tails...
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LETTER: The Mouse Clock Locus: Sequence and Comparative Analysis of 204 Kb from Mouse Chromosome 5
- Lisa D. Wilsbacher,
- Ashvin M. Sangoram,
- Marina P. Antoch,
- and Joseph S. Takahashi
Genome Res. December 1, 2000 10: 1928-1940; doi:10.1101/gr.155400
...U gene; sequence analysis also suggests the presence of two previously unidentified genes. In addition, we provide a comparative genomic sequence analysis with the syntenic region from human chromosome 4. Finally, a new BAC transgenic line indicates that the genomic region that is sufficient...

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