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Comparison of small n statistical tests of differential expression applied to microarrays

By Carl Murie, Owen Woody, Anna Y Lee and Robert Nadon
Topics: Methodology Article
Publisher: BioMed Central
OAI identifier: oai:pubmedcentral.nih.gov:2674054
Provided by: PubMed Central

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Citations

  1. (2008). A correction for estimating error when using the Local Pooled Error statistical test. Bioinformatics
  2. (2001). A model for measurement error for gene expression arrays.
  3. (2003). A random variance model for detection of differential gene expression in small microarray experiments. Bioinformatics
  4. (2006). AC: Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data.
  5. (2001). AD: A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes. Bioinformatics
  6. Affycomp: A benchmark for Affymetrix GeneChip expression measures:.
  7. Affymetrix: Latin Square Data.
  8. (2002). Affymetrix: Statistical Algorithms Description Document (Part
  9. (2005). An expression index for Affymetrix GeneChips based on the generalized algorithm. Bioinformatics
  10. (2003). Approximate variance-stabilizing transformations for gene-expression microarray data. Bioinformatics
  11. (2003). Boldrick JC: Multiple hypothesis testing in microarray experiments. Stat Sci
  12. (2004). BP: A case study on choosing normalization methods and test statistics for twochannel microarray data. Comp Funct Genomics
  13. (2003). Churchill GA: Statistical tests for differential expression in cDNA microarray experiments. Genome Biol
  14. (2007). CJ: Selection of differentially expressed genes in microarray data analysis.
  15. (2003). Comparison and meta-analysis of microarray data: from the bench to the computer desk. Trends Genet
  16. (2003). Design and analysis of DNA microarray investigations Statistics for biology and health,
  17. (2004). Design and analysis of experiments with high throughput biological assay data. Semin Cell Dev Biol
  18. (2002). DM: A variance-stabilizing transformation for gene-expression microarray data. Bioinformatics
  19. (2004). F: A model based background adjustment for oligonucleotide expression arrays.
  20. (2007). FA: Assessing differential gene expression with small sample sizes in oligonucleotide arrays using a meanvariance model. Biometrics
  21. (2005). Fifty years of empirical Bayes.
  22. (2007). GK: A comparison of background correction methods for two-colour microarrays. Bioinformatics
  23. (2005). GP: Sources of variation in Affymetrix microarray experiments.
  24. (2006). Grene R: The statistics of identifying differentially expressed genes in Expresso and TM4: a comparison. BMC Bioinformatics
  25. (2005). Hanash S: Comparison of seven methods for producing Affymetrix expression scores based on false discovery rates in disease profiling data.
  26. (2003). Heterogeneity of variance in gene expression microarray data:.
  27. (2002). Hoffman EP: Sources of variability and effect of experimental approach on expression profiling data interpretation.
  28. (2002). Hudson TJ: Characterization of variability in large-scale gene expression data: Implications for study design. Genomics
  29. (2001). Improved statistical inference from DNA microarray data using analysis of variance and a Bayesian statistical framework – Analysis of global gene expression in Escherichia Coli K12.
  30. (2008). Irizarry RA: Consolidated strategy for the analysis of microarray spike-in data. Nucleic Acids Res
  31. (2004). JK: Bayesian hierarchical error model for analysis of gene expression data. Bioinformatics
  32. (2007). JK: Error-pooling-based statistical methods for identifying novel temporal replication profiles of human chromosomes observed by DNA tiling arrays. Nucleic Acids Res
  33. (2007). JK: Statistical identification of differentially labeled peptides from liquid chromatography tandem mass spectrometry. Proteomics
  34. (2004). KF: Empirical evaluation of data transformations and ranking statistics for microarray analysis. Nucleic Acids Res
  35. Limma: linear models for microarray data. In Bioinformatics and computational biology solutions using R and Bioconductor Edited by: Gentleman R.
  36. (2004). Linear models and empirical bayes methods for assessing differential expression in microarray experiments.
  37. (2003). LM: Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification.
  38. (2003). Local pooled error test for identifying differentially expressed genes with a small number of replicated microarrays. Bioinformatics
  39. (2006). Microarray data analysis: from disarray to consolidation and consensus. Nat Rev Genet
  40. (2006). Reliability and reproducibility issues in DNA microarray measurements. Trends Genet
  41. (2005). Significance testing for small microarray experiments. Stat Med
  42. (2002). Speed T: Replicated microarray data. Stat Sin
  43. (2004). Speed TP: A benchmark for Affymetrix GeneChip expression measures. Bioinformatics
  44. (2003). Speed TP: Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics
  45. (2002). Statistical issues with microarrays: processing and analysis. Trends Genet
  46. (2002). TP: Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res
  47. (2002). Variance stabilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics
  48. (2007). Wang YD: Optimal shrinkage estimation of variances with applications to microarray data analysis.
  49. (2001). Wong WH: Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection.
  50. (2005). Zarbl H: Standardizing global gene expression analysis between laboratories and across platforms. Nat Methods

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