A model of technical variation of microarray signals

Journal of Computational Biology

Volumn 13, Issue 4, 2006, Pages 996-1003

  Chudin, E ^a   Kruglyak, S ^a   Baker, S C ^a   Oeser, S ^a   Barker, D ^a   McDaniel, T K ^a  

^a ILLUMINA INC   (United States)

Author keywords

Fold change; Microarray; Model; Quality metrics

Indexed keywords

ANALYTICAL PARAMETERS; ARTICLE; COMPARATIVE STUDY; DYNAMIC RANGE; EXPERIMENT; HYBRIDIZATION; LANGMUIR HYBRIDIZATION ISOTHERM; LINEAR SYSTEM; MATHEMATICAL MODEL; MEASUREMENT; MICROARRAY ANALYSIS; PHYSICAL PARAMETERS; PREDICTION; PRIORITY JOURNAL; QUALITY CONTROL; QUALITY METRICS; RESOLVED FOLD CHANGE;

COMPUTATIONAL BIOLOGY; DATA INTERPRETATION, STATISTICAL; MODELS, GENETIC; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS;

EID: 33745372491     PISSN: 10665277     EISSN: None     Source Type: Journal    
DOI: 10.1089/cmb.2006.13.996     Document Type: Article

References (9)

1. Cedilnik, A., Košmelj, K., and Blejec, A. 2004. The distribution of the ratio of jointly normal variables. Metodološki zvezki 1(1), 99-108.
2. Cui, X., and Churchill, G.A. 2003. Statistical tests for differential expression in cDNA microarray experiments. Genome Biol. 4(4), 210.
3. Halperin, A., Buhot, A., and Zhulina, E.B. 2004. Sensitivity, specificity, and the hybridization isotherms of DNA chips. Biophys J. 86(2), 718-730.
4. Irizarry, R.A., Hobbs, B., Collin, F., Beazer-Barclay, Y.D., Antonellis, K.J., Scherf, U., and Speed, T.P. 2003. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4(2), 249-264.
5. Kuhn, K., Baker, S.C., Chudin, E., Lieu, M.H., Oeser, S., Bennett, H., Rigault, P., Barker, D., McDaniel, T.K., and Chee, M.S. 2004. A novel, high-performance random array platform for quantitative gene expression profiling. Genome Res. 14(11), 2347-2356.
6. Lockhart, D.J., Dong, H., Byrne, M.C., Follettie, M.T., Gallo, M.V., Chee, M.S., Mittmann, M., Wang, C., Kobayashi, M., Horton, H., and Brown, E.L. 1996. Expression monitoring by hybridization to high-density oligonucleotide arrays. Nature Biotechnol. 14, 1675-1680.
7. Novak, J.P., Sladek, R., and Hudson, T.J. 2002. Characterization of variability in large-scale gene expression data: Implications for study design. Genomics 79(1), 104-113.
8. Ramakrishnan, R., Dorris, D., Lublinsky, A., Nguyen, A., Domanus, M., Prokhorova, A., Gieser, L., Touma, E., Lockner, R., Tata, M., Zhu, X., Patterson, M., Shippy, R., Sendera, T.J., and Mazumder, A. 2002. An assessment of Motorola CodeLink microarray performance for gene expression profiling applications. Nucl. Acids Res. 1, 30(7), e30.
9. Van Gelder, R.N., von Zastrow, M.E., Yool, A., Dement, W.C., Barchas, J.D., and Eberwine, J.H. 1990. Amplified RNA synthesized from limited quantities of heterogenous cDNA. Proc. Natl. Acad. Sci. USA 87, 1663-1667.