Research
Evaluation of next generation sequencing platforms for population targeted sequencing studies
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* Corresponding authors: Samuel Levy slevy@jcvi.org - Kelly A Frazer kfrazer@scripps.edu
- † Equal contributors
Genome Biology 2009, 10:R32 doi:10.1186/gb-2009-10-3-r32
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BioMed Central: 11 citations
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Software
John Archer, Greg Baillie, Simon J Watson, Paul Kellam, Andrew Rambaut, David L Robertson BMC Bioinformatics 2012, 13:47 (23 March 2012) |
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Review
Genomic sequencing in clinical trials Karen K Mestan, Leonard Ilkhanoff, Samdeep Mouli, Simon Lin Journal of Translational Medicine 2011, 9:222 (30 December 2011) |
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Database
Whole genome sequencing of peach (Prunus persica L.) for SNP identification and selection Riaz Ahmad, Dan E Parfitt, Joseph Fass, Ebenezer Ogundiwin, Amit Dhingra, Thomas M Gradziel, Dawei Lin, Nikhil A Joshi, Pedro J Martinez-Garcia, Carlos H Crisosto BMC Genomics 2011, 12:569 (22 November 2011) |
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Method
Katherine R Smith, Catherine J Bromhead, Michael S Hildebrand, A Eliot Shearer, Paul J Lockhart, Hossein Najmabadi, Richard J Leventer, George McGillivray, David J Amor, Richard J Smith, Melanie Bahlo Genome Biology 2011, 12:R85 (14 September 2011) A method for performing linkage analysis from exome sequencing variant data is presented
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Method
Sniper: improved SNP discovery by multiply mapping deep sequenced reads Daniel F Simola, Junhyong Kim Genome Biology 2011, 12:R55 (20 June 2011) A method for improved SNP discovery in next-generation sequencing data
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Research article
Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta) Gloria L Fawcett, Muthuswamy Raveendran, David Deiros, David Chen, Fuli Yu, Ronald Harris, Yanru Ren, Donna M Muzny, Jeffrey G Reid, David A Wheeler, Kimberly C Worley, Steven E Shelton, Ned H Kalin, Aleksandar Milosavljevic, Richard Gibbs, Jeffrey Rogers BMC Genomics 2011, 12:311 (13 June 2011) |
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Research
UMARS: Un-MAppable Reads Solution Sung-Chou Li, Wen-Ching Chan, Chun-Hung Lai, Kuo-Wang Tsai, Chun-Nan Hsu, Yuh-Shan Jou, Hua-Chien Chen, Chun-Hong Chen, Wen-chang Lin BMC Bioinformatics 2011, 12(Suppl 1):S9 (15 February 2011) |
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Proceedings
Discovery and characterization of medaka miRNA genes by next generation sequencing platform Sung-Chou Li, Wen-Ching Chan, Meng-Ru Ho, Kuo-Wang Tsai, Ling-Yueh Hu, Chun-Hung Lai, Chun-Nan Hsu, Pung-Pung Hwang, Wen-chang Lin BMC Genomics 2010, 11(Suppl 4):S8 (2 December 2010) |
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Research
Towards a comprehensive structural variation map of an individual human genome Andy W Pang, Jeffrey R MacDonald, Dalila Pinto, John Wei, Muhammad A Rafiq, Donald F Conrad, Hansoo Park, Matthew E Hurles, Charles Lee, J Craig Venter, Ewen F Kirkness, Samuel Levy, Lars Feuk, Stephen W Scherer Genome Biology 2010, 11:R52 (19 May 2010) A comprehensive map of structural variation in the human genome provides a reference dataset for analyses of future personal genomes. |
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Method
Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps Isheng J Tsai, Thomas D Otto, Matthew Berriman Genome Biology 2010, 11:R41 (13 April 2010) IMAGE generates local assemblies, closing gaps in genomes assembled from paired-end next generation sequencing data, often without the need for new data |
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Method
Luca Santuari, Sylvain Pradervand, Amelia-Maria Amiguet-Vercher, Jerôme Thomas, Eavan Dorcey, Keith Harshman, Ioannis Xenarios, Thomas E Juenger, Christian S Hardtke Genome Biology 2010, 11:R4 (12 January 2010) A new approach to detect deletions in divergentgenomes combines short read sequencing and tilling array data. Its utility is demonstrated on |