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METHODS: Single Nucleotide Polymorphism Mapping Using Genome-Wide Unique Sequences
- Leslie Y.Y. Chen,
- Szu-Hsien Lu,
- Edward S.C. Shih,
- and Ming-Jing Hwang
Genome Res. July 1, 2002 12: 1106-1111; Published in Advance June 18, 2002, doi:10.1101/gr.224502
...genomic sequences: A treasure trove of single-nucleotide polymorphisms. Genome Res. 8 : 748 – 754 . ↵ The International SNP Map Working Group ( 2001 ) A map of human sequence variation containing 1.42 million single nucleotide polymorphisms. Nature 409 : 928 – 933 . ↵ Venter J.C. , Adams M.D. , Myers E...
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RESOURCE: Expression-based Genetic/Physical Maps of Single-Nucleotide Polymorphisms Identified by the Cancer Genome Anatomy Project
- Robert Clifford,
- Michael Edmonson,
- Ying Hu,
- Cu Nguyen,
- Titia Scherpbier,
- and Kenneth H. Buetow
Genome Res. August 1, 2000 10: 1259-1265; doi:10.1101/gr.10.8.1259
.... , Kwok P.-Y. ( 1998 ) Overlapping genomic sequences: A treasure trove of single-nucleotide polymorphisms. Genome Res. 8 : 748 – 754 . ↵ Wall L. , Christiansen T. , Schwartz R.L. ( 1996 ) Programming Perl ( O'Reilly and Associates, Inc. Sebastopol, CA ), 2nd ed. . ↵ Wang D.G. , Fan J.-B. , Siao C...
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LETTER: Identification of Candidate Coding Region Single Nucleotide Polymorphisms in 165 Human Genes Using Assembled Expressed Sequence Tags
- Kavita Garg,
- Philip Green,
- and Deborah A. Nickerson
Genome Res. November 1, 1999 9: 1087-1092; doi:10.1101/gr.9.11.1087
...: A treasure trove of single-nucleotide polymorphisms. Genome Res. 8 : 748 – 754 . ↵ Tsai W. , Clarke S. ( 1994 ) Amino acid polymorphisms of the human L-isoaspartyl/D-aspartyl methyltransferase involved in protein repair. Biochem. Biophys. Res. Commun. 203 : 491 – 497 . ↵ von Eckardstein A. , Funke H...
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METHODS: Efficient Approach to Unique Single-Nucleotide Polymorphism Discovery
- Patricia Taillon-Miller,
- Ellen E. Piernot,
- and Pui-Yan Kwok
Genome Res. May 1, 1999 9: 499-505; doi:10.1101/gr.9.5.499
.... , Mutch D.G. , Kwok P.-Y. ( 1997 ) The homozygous complete hydatidiform mole: A unique resource for studies. Genomics 46 : 307 – 310 . ↵ Taillon-Miller P. , Gu Z. , Li Q. , Hillier L. , Kwok P.-Y. ( 1998 ) Overlapping genomic sequences: A treasure trove of single nucleotide polymorphisms. Genome Res. 8...
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METHODS: Robust and Accurate Single Nucleotide Polymorphism Genotyping by Dynamic Allele-Specific Hybridization (DASH): Design Criteria and Assay Validation
- Jonathan A. Prince,
- Lars Feuk,
- W. Mathias Howell,
- Magnus Jobs,
- Tesfai Emahazion,
- Kaj Blennow,
- and Anthony J. Brookes
Genome Res. January 1, 2001 11: 152-162; doi:10.1101/gr.150201
...by the solid-phase minisequencing method. Clin. Chim. Acta 226 : 225 – 236 . ↵ Taillon-Miller P. , Gu Z. , Li Q. , Hillier L. , Kwok P.Y. ( 1998 ) Overlapping genomic sequences: A treasure trove of single-nucleotide polymorphisms. Genome Res. 8 : 748 – 754 . ↵ Wang D.G. , Fan J.B. , Siao C.J. , Berno A...
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METHODS: Efficient High-Throughput Resequencing of Genomic DNA
- Raymond D. Miller,
- Shenghui Duan,
- Elizabeth G. Lovins,
- Ellen F. Kloss,
- and Pui-Yan Kwok
Genome Res. April 1, 2003 13: 717-720; Published in Advance March 12, 2003, doi:10.1101/gr.886203
...on the WWW for general users and for biologist programmers. Methods Mol. Biol. 132 : 365 – 386 . ↵ Taillon-Miller P. , Gu Z.J. , Li Q. , Hillier L. , Kwok P.Y. ( 1998 ) Overlapping genomic sequences—A treasure trove of single-nucleotide polymorphisms. Genome Res. 8 : 748 – 754 . ↵ Taillon-Miller P. , Piernot...
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LETTER: Long-Range Comparison of Human and Mouse SCL Loci: Localized Regions of Sensitivity to Restriction Endonucleases Correspond Precisely with Peaks of Conserved Noncoding Sequences
- Berthold Göttgens,
- James G.R. Gilbert,
- Linda M. Barton,
- Darren Grafham,
- Jane Rogers,
- David R. Bentley,
- and Anthony R. Green
Genome Res. January 1, 2001 11: 87-97; doi:10.1101/gr.153001
...insert sequences to assess the frequency of sequence length and single nucleotide polymorphisms (SNPs) between these two important laboratory strains. We found 18 sequence length polymorphisms, 10 of which were just one nucleotide, with the remaining eight covering 33 bp in total. The number of C...
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RESOURCE: A SNP Resource for Human Chromosome 22: Extracting Dense Clusters of SNPs From the Genomic Sequence
- Elisabeth Dawson,
- Yuan Chen,
- Sarah Hunt,
- Luc J. Smink,
- Adrienne Hunt,
- Kate Rice,
- Simon Livingston,
- Suzannah Bumpstead,
- Richard Bruskiewich,
- Pak Sham,
- Rocky Ganske,
- Mark Adams,
- Kazuhiko Kawasaki,
- Nobuyoshi Shimizu,
- Shinsei Minoshima,
- Bruce Roe,
- David Bentley,
- and Ian Dunham
Genome Res. January 1, 2001 11: 170-178; doi:10.1101/gr.156901
...: A treasure trove of single-nucleotide polymorphisms. Genome Res. 8 : 748 – 754 . ↵ Taillon-Miller P. , Piernot E.E. , Kwok P.Y. ( 1999 ) Efficient approach to unique single-nucleotide polymorphism discovery. Genome Res. 9 : 499 – 505 . ↵ Venter J.C. , Adams M.D. , Sutton G.G. , Kerlavage A.R. , Smith H...
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Research: DNA methylation profiles of diverse Brachypodium distachyon align with underlying genetic diversity
- Steven R. Eichten,
- Tim Stuart,
- Akanksha Srivastava,
- Ryan Lister,
- and Justin O. Borevitz
Genome Res. November 2016 26: 1520-1531; Published in Advance September 9, 2016, doi:10.1101/gr.205468.116
...methylation states. To investigate the role of DNA methylation variation, transposable element polymorphism, and genomic diversity, whole-genome bisulfite sequencing was performed on genetically diverse lines of the model cereal Brachypodium distachyon . Although DNA methylation profiles are broadly similar...
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Methods: Diploid genome reconstruction of Ciona intestinalis and comparative analysis with Ciona savignyi
- Jong Hyun Kim,
- Michael S. Waterman,
- and Lei M. Li
Genome Res. July 2007 17: 1101-1110; Published in Advance June 13, 2007, doi:10.1101/gr.5894107
...of genetic variation is single-nucleotide polymorphism (SNP). SNP detection in sequencing projects is enabled by observing and quantifying inconsistencies in assemblies. If a significant inconsistency is observed at the same position of an assembly layout, the position can be regarded as a SNP. In the human...
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