SUM: A new way to incorporate mismatch probe measurements

Genomics

Volumn 84, Issue 4, 2004, Pages 767-777

  Huang, Shuguang ^a   Wang, Yun ^b   Chen, Peining ^a   Qian, Hui Rong ^a   Yeo, Adeline ^a   Bemis, Kerry ^a  

^a ELI LILLY AND COMPANY   (United States)

^b PURDUE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; ARTICLE; DATA BASE; DNA MICROARRAY; GENETIC TRANSCRIPTION; MISMATCH REPAIR; PRIORITY JOURNAL;

EID: 4744373631     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ygeno.2004.06.013     Document Type: Review

References (14)

1. R. Lipshutz, S. Fodor, T. Gingeras, and D. Lockhart High density synthetic oligonucleotide arrays Nat. Genet. Suppl. 21 1999 20 24
2. C. Li, and W.W. Wong Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection Proc. Natl. Acad. Sci. USA 98 2001 31 36
3. F. Naef, D.A. Lim, N. Patil, and M.O. Magnasco From features to expression: high-density oligonucleotide array analysis revisited http://xxx.lanl.gov/ps/physics/0102010 2001
4. R.A. Irizarry, B. Hobbs, F. Collin, Y.D. Beazer-Barclay, K.J. Antonellis, U. Scherf, and T.P. Speed Exploration, normalization, and summaries of high density oligonucleotide array probe level data Biostatistics 4 2003 249 264
5. R.A. Irizarry, B.M. Bolstad, F. Collin, L.M. Cope, B. Hobbs, and T.P. Speed Summaries of Affymetrix GeneChip probe level data Nucleic Acids Res. 31 2003 e15
6. Affymetrix, Statistical algorithms reference guide, Technical report, http://www.affymetrix.com/support/technical/manuals.affx, 2001..
7. B.M. Bolstad, R.A. Irizarry, M. Astrand, and T.P. Speed A comparison of normalization methods for high density oligonucleotide array data based on bias and variance Bioinformatics 19 2003 185 193
8. W.J. Lemon, J.J.T. Palatini, R. Krahe, and F.A. Wright Theoretical and experimental comparisons of gene expression indexes for oligonucleotide arrays Bioinformatics 18 2002 1470 1476
9. D. Rajagopalan A comparison of statistical methods for analysis of high density oligonucleotide array data Bioinformatics 19 2003 1469 1476
10. L. Lin, A.S. Hedayat, B. Sinha, and M. Yang Statistical methods in assessing agreement: model, issues and tools J. Am. Stat. Assoc. 97 2002 257 270
11. S. Huang, H. Qian, C. Geringer, L. Gelbert, and K.G. Bemis Assessing the variability in GeneChip data Am. J. Pharmacogenom. 3 2003 279 290
12. S. Huang, A.A. Yeo, L. Gelbert, X. Lin, L. Nisenbaum, and K.G. Bemis At what scale should microarray data be analyzed? Am. J. Pharmacogenom. 4 2004 129 139
13. Y. Benjamini, and Y. Hochberg Controlling the false discovery rate: a practical and powerful approach to multiple testing J.R. Stat. Soc. B 57 1995 289 300
14. H.O. Posten The robustness of the two-sample t-test over the Pearson system J. Stat. Comput. Simul. 6 1978 295 311