S. Dudoit, Y.H. Yang, T.P. Speed, and M.J. Callow. (2002) "Statistical Methods for Identifying Di#erentially Expressed Genes in Replicated CDNA Microarray Experiments. " Statistica Sinica, 12(1):111--139. Home/Search Document Details and Download
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Distributed Storage and Analysis of Microarray Data in the.. - Stratowa (2003) (Correct)
....corresponding treeset consists of expression tree and mask tree, respectively. The final step, gene filtering and data analysis, is the task of class XAnalySet, which calls the appropriate algorithms. Currently, t test and resampling based multiple testing methods, as described in Dudoit et al. [11], are implemented in class TUnivariateTest. void ImportSchemes( create new scheme manager XSchemeManager manager = new XSchemeManager( MyManager ) create new root schemes file manager New( GeneChipCDFs , GeneChip ) store chip definitions , probe sequences and annotations ....
....algorithm; an example is shown in Figure 8. Normalization: The comparison of gene expression results across multiple experiments relies crucially on e#ective normalization algorithms. While initial methods for normalization assumed a linear relationship between experiments, Dudoit et al. [11] were the first to point out the need for non linear normalization methods. Preferably, these algorithms should be applied only to genes considered to be invariant in the respective experiments. XPS allows the user to select these genes, or supplies a rank based algorithm. Currently implemented ....
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Dudoit S. et al. Statistical methods for identifying di#erentially expressed genes in replicated cDNA microarray experiments. Technical Report 578 (2000), Department of Statistics, UC Berkeley, CA. (http://www.stat.Berkeley.EDU/users/terry/zarray/TechReport/578.pdf)
A False Discovery Rate approach to separate the score.. - Scheid, Spang (2003) (Correct)
....in mean gene expression of several thousands of genes all measured from the same set of samples. Traditional multiplicity corrections like Bonferroni or Bonferroni Holm control the Family wise Error Rate (FWER) which is the probability of making at least one false positive decision. Dudoit et al. [2] give an overview of FWER controlling procedures including methods that correct for the dependence structure in gene expression experiments resulting from coregulation. FWER controlling procedures are often too conservative unless we increase the desired probability of making at least one false ....
Dudoit, S., Yang, Y. H., Callow, M. J., Speed, T. P. 2002. Statistical methods for identifying di#erentially expressed genes in replicated cDNA microarray experiments. Statistica Sinica, 12:111--139.
A Multi-Strip Algorithm and Its Application to Gene.. - Using Dna-Array Data (Correct)
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S. Dudoit, Y.H. Yang, T.P. Speed, and M.J. Callow. (2002) "Statistical Methods for Identifying Di#erentially Expressed Genes in Replicated CDNA Microarray Experiments. " Statistica Sinica, 12(1):111--139.
Microarray Image Compression: SLOCO and the Effect of.. - Jornsten, Wang, Yu.. (2002) (Correct)
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Y. Yang, S. Dudoit, M. Callow, T. Speed, Statistical methods for identifying di erentially expressed genes in replicated cdna microarray experiments, Tech. rep., Statistics, UC Berkeley, Berkeley, California (Aug 2000).
Microarray Image Compression: SLOCO and the Effect of .. - Jornsten, Wang, Yu.. (2002) (Correct)
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Y. Yang, S. Dudoit, M. Callow, T. Speed, Statistical methods for identifying di erentially expressed genes in replicated cDNA microarray experiments, Tech. rep., Statistics, UC Berkeley, Berkeley, California (Aug 2000).
Studies of Microarray Data Analysis with Applications for Human .. - Hautaniemi (Correct)
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S. Dudoit, Y. H. Yang, M. J. Callow, and T. P. Speed. Statistical methods for identifying di#erentially expressed genes in replicated cDNA microarray experiments. Statistica Sinica, 12(1):111--139, 2002.
Principled Computational Methods for the Validation and.. - Hartemink (2001) (1 citation) (Correct)
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Sandrine Dudoit, Yee Hwa Yang, Matthew J. Callow, and Terence P. Speed. Statistical methods for identifying di#erentially expressed genes in replicated cdna microarray experiments. Technical Report 578, UC Berkeley Department of Statistics, August 2000.
Stochastic Models Inspired by Hybridization Theory for Short.. - Wu, Irizarry (2004) (Correct)
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S. Dudoit, Y. H. Yang, M. J. Callow, and T. P. Speed. Statistical methods for identifying di#erentially expressed genes in replicated cDNA microarray experiments. Statistica Sinica, 12(1):111--139, 2002.
Visualized Classification of Multiple Sample Types - Li Zhang And (Correct)
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Dudoit, S., Yang, Y. H., Callow, M. J., and Speed, T. P. Statistical Methods for Identifying Di erentially Expressed Genes in Replicated cDNA Microarray Experiments. Technical report 578, Stanford University,Department of Biochemistry Stanford University School of Medicine, August 2000.
Faster cyclic loess: normalizing DNA arrays via linear.. - Ballman, Grill, Oberg.. (2004) (Correct)
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S. Dudoit, Y. H. Yang, M. J. Callow, and T. P. Speed. Statistical methods for identifying di#erentially expressed genes in replicated cdna microarray experiments. Statistica Sinca, 12:111--139, 2002. 23
Microarray Image Compression: SLOCO and the Effect of .. - Jornsten, Wang, Yu.. (2002) (Correct)
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Y. Yang, S. Dudoit, M. Callow, T. Speed, Statistical methods for identifying di erentially expressed genes in replicated cdna microarray experiments, Tech. rep., Statistics, UC Berkeley, Berkeley, California (Aug 2000).
cant di erential expression (as determined by the GG model).. - Log Odds Log (Correct)
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Dudoit S, Yang YH, Speed TP, Callow MJ. Statistical methods for identifying di erentially expressed genes in replicated cDNA microarray experiments. Statistica Sinica 2001; to appear.
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