My NCBISign In
Single-feature polymorphism discovery in the barley transcriptome
Nils Rostoks, Justin O Borevitz, Peter E Hedley, Joanne Russell, Sharon Mudie, Jenny Morris, Linda Cardle, David F Marshall, Robbie Waugh
Genome Biol. 2005; 6(6): R54. Published online 2005 May 11. doi: 10.1186/gb-2005-6-6-r54
PMCID:
PMC1175974
Abstract Full Text PDF–244K

Is Cited by the Following 41 Articles in this Archive:

Generalized shrinkage F-like statistics for testing an interaction term in gene expression analysis in the presence of heteroscedasticity
Jie Yang, George Casella, Lauren M McIntyre
BMC Bioinformatics. 2011; 12: 427. Published online 2011 November 1. doi: 10.1186/1471-2105-12-427
PMCID:
PMC3221690
Abstract Full Text PDF–680K Supplementary Material
Single feature polymorphisms (SFPs) for drought tolerance in pigeonpea (Cajanus spp.)
Rachit K. Saxena, Xinping Cui, Vivek Thakur, Barbara Walter, Timothy J. Close, Rajeev K. Varshney
Funct Integr Genomics. 2011 December; 11(4): 651–657. Published online 2011 May 6. doi: 10.1007/s10142-011-0227-2
PMCID:
PMC3220819
Abstract Full Text PDF–205K Supplementary Material
A high-density transcript linkage map with 1,845 expressed genes positioned by microarray-based Single Feature Polymorphisms (SFP) in Eucalyptus
Leandro G Neves, Eva MC Mamani, Acelino C Alfenas, Matias Kirst, Dario Grattapaglia
BMC Genomics. 2011; 12: 189. Published online 2011 April 14. doi: 10.1186/1471-2164-12-189
PMCID:
PMC3090358
Abstract Full Text PDF–1012K Supplementary Material
Gains in QTL Detection Using an Ultra-High Density SNP Map Based on Population Sequencing Relative to Traditional RFLP/SSR Markers
Huihui Yu, Weibo Xie, Jia Wang, Yongzhong Xing, Caiguo Xu, Xianghua Li, Jinghua Xiao, Qifa Zhang
PLoS One. 2011; 6(3): e17595. Published online 2011 March 3. doi: 10.1371/journal.pone.0017595
Correction in:
PLoS One. 2011; 6(3): 10.1371/annotation/f2eb75fb-ae22-4a57-b828-1506aa506c6d.
PMCID:
PMC3048400
Abstract Full Text PDF–918K Supplementary Material Correction
High-Resolution Genotyping via Whole Genome Hybridizations to Microarrays Containing Long Oligonucleotide Probes
Yan Fu, Nathan M. Springer, Kai Ying, Cheng-Ting Yeh, A. Leonardo Iniguez, Todd Richmond, Wei Wu, Brad Barbazuk, Dan Nettleton, Jeff Jeddeloh, Patrick S. Schnable
PLoS One. 2010; 5(12): e14178. Published online 2010 December 2. doi: 10.1371/journal.pone.0014178
PMCID:
PMC2996289
Abstract Full Text PDF–965K Supplementary Material
Transcriptome analysis of a barley breeding program examines gene expression diversity and reveals target genes for malting quality improvement
María Muñoz-Amatriaín, Yanwen Xiong, Mark R Schmitt, Hatice Bilgic, Allen D Budde, Shiaoman Chao, Kevin P Smith, Gary J Muehlbauer
BMC Genomics. 2010; 11: 653. Published online 2010 November 23. doi: 10.1186/1471-2164-11-653
PMCID:
PMC3091773
Abstract Full Text PDF–483K Supplementary Material
Homoeolog-specific transcriptional bias in allopolyploid wheat
Alina R Akhunova, Rustam T Matniyazov, Hanquan Liang, Eduard D Akhunov
BMC Genomics. 2010; 11: 505. Published online 2010 September 17. doi: 10.1186/1471-2164-11-505
PMCID:
PMC2997001
Abstract Full Text PDF–845K Supplementary Material
Rice Snl6, a Cinnamoyl-CoA Reductase-Like Gene Family Member, Is Required for NH1-Mediated Immunity to Xanthomonas oryzae pv. oryzae
Rebecca S. Bart, Mawsheng Chern, Miguel E. Vega-Sánchez, Patrick Canlas, Pamela C. Ronald
PLoS Genet. 2010 September; 6(9): e1001123. Published online 2010 September 16. doi: 10.1371/journal.pgen.1001123
PMCID:
PMC2940737
Abstract Full Text PDF–573K Supplementary Material
A simple optimization can improve the performance of single feature polymorphism detection by Affymetrix expression arrays
Youko Horiuchi, Yoshiaki Harushima, Hironori Fujisawa, Takako Mochizuki, Masanori Kawakita, Takayuki Sakaguchi, Nori Kurata
BMC Genomics. 2010; 11: 315. Published online 2010 May 20. doi: 10.1186/1471-2164-11-315
PMCID:
PMC2885369
Abstract Full Text PDF–3.4M Supplementary Material
Large scale analysis of positional effects of single-base mismatches on microarray gene expression data
Fenghai Duan, Mark A Pauley, Eliot R Spindel, Li Zhang, Robert B Norgren, Jr
BioData Min. 2010; 3: 2. Published online 2010 April 29. doi: 10.1186/1756-0381-3-2
PMCID:
PMC2877042
Abstract Full Text PDF–830K
Genomics and Bioinformatics Resources for Crop Improvement
Keiichi Mochida, Kazuo Shinozaki
Plant Cell Physiol. 2010 April; 51(4): 497–523. Published online 2010 April 8. doi: 10.1093/pcp/pcq027
PMCID:
PMC2852516
Abstract Full Text PDF–1.1M
From QTL to candidate gene: Genetical genomics of simple and complex traits in potato using a pooling strategy
Bjorn Kloosterman, Marian Oortwijn, Jan uitdeWilligen, Twan America, Ric de Vos, Richard GF Visser, Christian WB Bachem
BMC Genomics. 2010; 11: 158. Published online 2010 March 8. doi: 10.1186/1471-2164-11-158
PMCID:
PMC2843620
Abstract Full Text PDF–1.6M Supplementary Material
Complementary genetic and genomic approaches help characterize the linkage group I seed protein QTL in soybean
Yung-Tsi Bolon, Bindu Joseph, Steven B Cannon, Michelle A Graham, Brian W Diers, Andrew D Farmer, Gregory D May, Gary J Muehlbauer, James E Specht, Zheng Jin Tu, Nathan Weeks, Wayne W Xu, Randy C Shoemaker, Carroll P Vance
BMC Plant Biol. 2010; 10: 41. Published online 2010 March 3. doi: 10.1186/1471-2229-10-41
PMCID:
PMC2848761
Abstract Full Text PDF–3.2M Supplementary Material
Candidate genes for alcohol preference identified by expression profiling in alcohol-preferring and -nonpreferring reciprocal congenic rats
Tiebing Liang, Mark W Kimpel, Jeanette N McClintick, Ashley R Skillman, Kevin McCall, Howard J Edenberg, Lucinda G Carr
Genome Biol. 2010; 11(2): R11. Published online 2010 February 3. doi: 10.1186/gb-2010-11-2-r11
PMCID:
PMC2872871
Abstract Full Text PDF–923K Supplementary Material
A pipeline for high throughput detection and mapping of SNPs from EST databases
A. M. Anithakumari, Jifeng Tang, Herman J. van Eck, Richard G. F. Visser, Jack A. M. Leunissen, Ben Vosman, C. Gerard van der Linden
Mol Breed. 2010 June; 26(1): 65–75. Published online 2010 January 20. doi: 10.1007/s11032-009-9377-5
PMCID:
PMC2869401
Abstract Full Text PDF–690K Supplementary Material
An eQTL Analysis of Partial Resistance to Puccinia hordei in Barley
Xinwei Chen, Christine A. Hackett, Rients E. Niks, Peter E. Hedley, Clare Booth, Arnis Druka, Thierry C. Marcel, Anton Vels, Micha Bayer, Iain Milne, Jenny Morris, Luke Ramsay, David Marshall, Linda Cardle, Robbie Waugh
PLoS One. 2010; 5(1): e8598. Published online 2010 January 6. doi: 10.1371/journal.pone.0008598
PMCID:
PMC2798965
Abstract Full Text PDF–1.1M Supplementary Material
Oligonucleotide array discovery of polymorphisms in cultivated tomato (Solanum lycopersicum L.) reveals patterns of SNP variation associated with breeding
Sung-Chur Sim, Matthew D Robbins, Charles Chilcott, Tong Zhu, David M Francis
BMC Genomics. 2009; 10: 466. Published online 2009 October 9. doi: 10.1186/1471-2164-10-466
PMCID:
PMC2763011
Abstract Full Text PDF–295K Supplementary Material
Single-feature polymorphism discovery by computing probe affinity shape powers
Wayne Wenzhong Xu, Seungho Cho, S Samuel Yang, Yung-Tsi Bolon, Hatice Bilgic, Haiyan Jia, Yanwen Xiong, Gary J Muehlbauer
BMC Genet. 2009; 10: 48. Published online 2009 August 26. doi: 10.1186/1471-2156-10-48
PMCID:
PMC2746803
Abstract Full Text PDF–1.2M Supplementary Material
Comparative transcriptomics in the Triticeae
Andreas W Schreiber, Tim Sutton, Rico A Caldo, Elena Kalashyan, Ben Lovell, Gwenda Mayo, Gary J Muehlbauer, Arnis Druka, Robbie Waugh, Roger P Wise, Peter Langridge, Ute Baumann
BMC Genomics. 2009; 10: 285. Published online 2009 June 29. doi: 10.1186/1471-2164-10-285
PMCID:
PMC2717122
Abstract Full Text PDF–413K
Detection and validation of single feature polymorphisms using RNA expression data from a rice genome array
Sung-Hyun Kim, Prasanna R Bhat, Xinping Cui, Harkamal Walia, Jin Xu, Steve Wanamaker, Abdelbagi M Ismail, Clyde Wilson, Timothy J Close
BMC Plant Biol. 2009; 9: 65. Published online 2009 May 29. doi: 10.1186/1471-2229-9-65
PMCID:
PMC2697985
Abstract Full Text PDF–1012K Supplementary Material
Discovery and mapping of single feature polymorphisms in wheat using Affymetrix arrays
Amy N Bernardo, Peter J Bradbury, Hongxiang Ma, Shengwa Hu, Robert L Bowden, Edward S Buckler, Guihua Bai
BMC Genomics. 2009; 10: 251. Published online 2009 May 29. doi: 10.1186/1471-2164-10-251
PMCID:
PMC2698007
Abstract Full Text PDF–373K Supplementary Material
SNEP: Simultaneous detection of nucleotide and expression polymorphisms using Affymetrix GeneChip
Hironori Fujisawa, Youko Horiuchi, Yoshiaki Harushima, Toyoyuki Takada, Shinto Eguchi, Takako Mochizuki, Takayuki Sakaguchi, Toshihiko Shiroishi, Nori Kurata
BMC Bioinformatics. 2009; 10: 131. Published online 2009 May 6. doi: 10.1186/1471-2105-10-131
PMCID:
PMC2706822
Abstract Full Text PDF–597K Supplementary Material
Detection of genomic deletions in rice using oligonucleotide microarrays
Myron Bruce, Ann Hess, Jianfa Bai, Ramil Mauleon, M Genaleen Diaz, Nobuko Sugiyama, Alicia Bordeos, Guo-Liang Wang, Hei Leung, Jan E Leach
BMC Genomics. 2009; 10: 129. Published online 2009 March 25. doi: 10.1186/1471-2164-10-129
PMCID:
PMC2666768
Abstract Full Text PDF–340K Supplementary Material
Robust Detection and Genotyping of Single Feature Polymorphisms from Gene Expression Data
Minghui Wang, Xiaohua Hu, Gang Li, Lindsey J. Leach, Elena Potokina, Arnis Druka, Robbie Waugh, Michael J. Kearsey, Zewei Luo
PLoS Comput Biol. 2009 March; 5(3): e1000317. Published online 2009 March 13. doi: 10.1371/journal.pcbi.1000317
PMCID:
PMC2649212
Abstract Full Text PDF–692K Supplementary Material
Array-based genotyping in S.cerevisiae using semi-supervised clustering
Richard Bourgon, Eugenio Mancera, Alessandro Brozzi, Lars M. Steinmetz, Wolfgang Huber
Bioinformatics. 2009 April 15; 25(8): 1056–1062. Published online 2009 February 23. doi: 10.1093/bioinformatics/btp104
PMCID:
PMC2666814
Abstract Full Text PDF–812K Supplementary Material
Importance of Lineage-Specific Expansion of Plant Tandem Duplicates in the Adaptive Response to Environmental Stimuli
Kousuke Hanada, Cheng Zou, Melissa D. Lehti-Shiu, Kazuo Shinozaki, Shin-Han Shiu
Plant Physiol. 2008 October; 148(2): 993–1003. doi: 10.1104/pp.108.122457
PMCID:
PMC2556807
Abstract Full Text PDF–634K Supplementary Material
TriMEDB: A database to integrate transcribed markers and facilitate genetic studies of the tribe Triticeae
Keiichi Mochida, Daisuke Saisho, Takuhiro Yoshida, Tetsuya Sakurai, Kazuo Shinozaki
BMC Plant Biol. 2008; 8: 72. Published online 2008 June 30. doi: 10.1186/1471-2229-8-72
PMCID:
PMC2474609
Abstract Full Text PDF–779K Supplementary Material
Identification of SNPs and INDELS in swine transcribed sequences using short oligonucleotide microarrays
Steve R Bischoff, Shengdar Tsai, Nicholas E Hardison, Abby M York, Brad A Freking, Dan Nonneman, Gary Rohrer, Jorge A Piedrahita
BMC Genomics. 2008; 9: 252. Published online 2008 May 29. doi: 10.1186/1471-2164-9-252
PMCID:
PMC2442091
Abstract Full Text PDF–698K Supplementary Material
Global Analysis of Genetic, Epigenetic and Transcriptional Polymorphisms in Arabidopsis thaliana Using Whole Genome Tiling Arrays
Xu Zhang, Shinhan Shiu, Andrew Cal, Justin O. Borevitz
PLoS Genet. 2008 March; 4(3): e1000032. Published online 2008 March 21. doi: 10.1371/journal.pgen.1000032
Correction in:
PLoS Genet. 2008 June; 4(6): 10.1371/annotation/e21d3565-fec6-44d9-8fab-83da49c7c0b8.
PMCID:
PMC2265482
Abstract Full Text PDF–483K Supplementary Material Correction
Detection and validation of single feature polymorphisms in cowpea (Vigna unguiculata L. Walp) using a soybean genome array
Sayan Das, Prasanna R Bhat, Chinta Sudhakar, Jeffrey D Ehlers, Steve Wanamaker, Philip A Roberts, Xinping Cui, Timothy J Close
BMC Genomics. 2008; 9: 107. Published online 2008 February 28. doi: 10.1186/1471-2164-9-107
PMCID:
PMC2270837
Abstract Full Text PDF–555K Supplementary Material
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