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Normalization of two-channel microarrays accounting for experimental design and intensity-dependent relationships
Alan R Dabney, John D Storey
Genome Biol. 2007; 8(3): R44. Published online 2007 March 28. doi: 10.1186/gb-2007-8-3-r44
PMCID:
PMC1868928
Abstract Full Text PDF–1.3M Supplementary Material
 Is Cited by the Following 8 Articles in this Archive:
Transcriptome and targetome analysis in MIR155 expressing cells using RNA-seq
Guorong Xu, Claire Fewell, Christopher Taylor, Nan Deng, Dale Hedges, Xia Wang, Kun Zhang, Michelle Lacey, Haitao Zhang, Qinyan Yin, Jennifer Cameron, Zhen Lin, Dongxiao Zhu, Erik K. Flemington
RNA. 2010 August; 16(8): 1610–1622. doi: 10.1261/rna.2194910
PMCID:
PMC2905759
Abstract Full Text PDF–1.1M
Error, reproducibility and sensitivity: a pipeline for data processing of Agilent oligonucleotide expression arrays
Benjamin Chain, Helen Bowen, John Hammond, Wilfried Posch, Jane Rasaiyaah, Jhen Tsang, Mahdad Noursadeghi
BMC Bioinformatics. 2010; 11: 344. Published online 2010 June 24. doi: 10.1186/1471-2105-11-344
PMCID:
PMC2909218
Abstract Full Text PDF–2.0M Supplementary Material
Supervised normalization of microarrays
Brigham H. Mecham, Peter S. Nelson, John D. Storey
Bioinformatics. 2010 May 15; 26(10): 1308–1315. Published online 2010 March 31. doi: 10.1093/bioinformatics/btq118
PMCID:
PMC2865860
Abstract Full Text PDF–384K Supplementary Material
Normalization of peak intensities in bottom-up MS-based proteomics using singular value decomposition
Yuliya V. Karpievitch, Thomas Taverner, Joshua N. Adkins, Stephen J. Callister, Gordon A. Anderson, Richard D. Smith, Alan R. Dabney
Bioinformatics. 2009 October 1; 25(19): 2573–2580. Published online 2009 July 14. doi: 10.1093/bioinformatics/btp426
PMCID:
PMC2752608
Abstract Full Text PDF–423K Supplementary Material
High-resolution genome-wide cytosine methylation profiling with simultaneous copy number analysis and optimization for limited cell numbers
Mayumi Oda, Jacob L. Glass, Reid F. Thompson, Yongkai Mo, Emmanuel N. Olivier, Maria E. Figueroa, Rebecca R. Selzer, Todd A. Richmond, Xinmin Zhang, Luke Dannenberg, Roland D. Green, Ari Melnick, Eli Hatchwell, Eric E. Bouhassira, Amit Verma, Masako Suzuki, John M. Greally
Nucleic Acids Res. 2009 July; 37(12): 3829–3839. Published online 2009 July. doi: 10.1093/nar/gkp260
PMCID:
PMC2709560
Abstract Full Text PDF–424K Supplementary Material
Transcriptome-Wide Analysis of Uncapped mRNAs in Arabidopsis Reveals Regulation of mRNA Degradation
Yuling Jiao, José Luis Riechmann, Elliot M. Meyerowitz
Plant Cell. 2008 October; 20(10): 2571–2585. doi: 10.1105/tpc.108.062786
PMCID:
PMC2590717
Abstract Full Text PDF–1.9M Supplementary Material
MAID : An effect size based model for microarray data integration across laboratories and platforms
Ivan Borozan, Limin Chen, Bryan Paeper, Jenny E Heathcote, Aled M Edwards, Michael Katze, Zhaolei Zhang, Ian D McGilvray
BMC Bioinformatics. 2008; 9: 305. Published online 2008 July 10. doi: 10.1186/1471-2105-9-305
PMCID:
PMC2483727
Abstract Full Text PDF–504K Supplementary Material
Mixture modeling of transcript abundance classes in natural populations
Wen-Ping Hsieh, Gisele Passador-Gurgel, Eric A Stone, Greg Gibson
Genome Biol. 2007; 8(6): R98. Published online 2007 June 4. doi: 10.1186/gb-2007-8-6-r98
PMCID:
PMC2394757
Abstract Full Text PDF–523K Supplementary Material
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